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1 FASTX-Toolkit - Hannon Lab
http://hannonlab.cshl.edu/fastx_toolkit/
The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing. Next-Generation sequencing machines usually produce ...
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2 Welcome to FaBox (1.61) - an online fasta sequence toolbox
https://birc.au.dk/~palle/php/fabox/
FaBox is an intuitive and simple online toolbox for fasta sequences.
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3 FastA - Sequence Similarity Searching - EMBL-EBI
https://www.ebi.ac.uk/Tools/sss/fasta/
This tool provides sequence similarity searching against protein databases using the FASTA suite of programs. FASTA provides a heuristic search with a ...
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4 FASTA online toolbox - bio.tools
https://bio.tools/fabox
An online fasta sequence toolbox.
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5 FASTA TOOL KIT - YouTube
https://www.youtube.com/watch?v=3DrE5wIcpW8
MehWas-Omics
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6 FAST: FAST Analysis of Sequences Toolbox - ResearchGate
https://www.researchgate.net/publication/277780449_FAST_FAST_Analysis_of_Sequences_Toolbox
The default data exchange format in FAST is Multi-FastA (specifically, a restriction of BioPerl FastA format). Sanger and Illumina 1.8+ FastQ ...
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7 FAST: FAST Analysis of Sequences Toolbox - PMC - NCBI
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4437040/
In the FAST implementation of FastA format, multiple sequence records may appear in a single file or input stream. Sequence data may contain gap ...
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8 Developing a standalone toolbox for processing FASTA files
https://zenodo.org/record/1198982
Developing a standalone toolbox for processing FASTA files. H. López-Fernández; M. Reboiro-Jato; N. Vázquez; P. Duque; F. Fdez-Riverola; ...
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9 CJ-Chen/TBtools: GUI/CommandLine Tool Box for ... - GitHub
https://github.com/CJ-Chen/TBtools
Fasta format is only required for multiple sequences. 2. A target sequence file, e.g. transcriptome, genome. Output: BLAST result in user specific format (xml, ...
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10 FASTA format - Wikipedia
https://en.wikipedia.org/wiki/FASTA_format
The simplicity of FASTA format makes it easy to manipulate and parse sequences using text-processing tools and scripting languages like the R programming ...
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11 SeqKit: A Cross-Platform and Ultrafast Toolkit for ... - PLOS
https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0163962
FASTA and FASTQ are basic and ubiquitous formats for storing nucleotide and protein sequences. Common manipulations of FASTA/Q file include ...
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12 SRA toolkit (NCBI) - sra to fasta - Biostars
https://www.biostars.org/p/316506/
You can use the same utility fastq-dump from SRA toolkit to convert from .SAR to either .fastq or .fasta. fastq-dump --split-files --fasta 60 SRR390728.
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13 Bioinformatics Toolbox Documentation - MathWorks
https://www.mathworks.com/help/bioinfo/
Using toolbox functions, you can read genomic and proteomic data from standard file formats such as SAM, FASTA, CEL, and CDF, as well as from online ...
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14 FAST: FAST Analysis of Sequences Toolbox. - eScholarship
https://escholarship.org/uc/item/0c5960fp
The default data exchange format in FAST is Multi-FastA (specifically, a restriction of BioPerl FastA format). Sanger and Illumina 1.8+ FastQ formatted ...
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15 Cloning Wizard - Doulix
https://doulix.com/toolbox/from-fasta-to-synthesis/
home Toolbox from-fasta-to-synthesis ... Just upload your complete sequence as .gb or .fasta format file and DOULIX will ... Upload valid FASTA or Genbank.
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16 Bioinformatics with MATLAB - Biofasta
http://biofasta.com/#!advancedbioinformatics-matlab/index.md
Using toolbox functions, you can read genomic and proteomic data from standard file formats such as SAM, FASTA, CEL, and CDF, as well as from online ...
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17 read_fasta: Read sequences in FASTA format in bioseq - Rdrr.io
https://rdrr.io/cran/bioseq/man/read_fasta.html
In bioseq: A Toolbox for Manipulating Biological Sequences · View source: R/read_write_fasta.R. read_fasta, R Documentation. Read sequences in ...
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18 rcsb — PyRosetta 4.0 documentation
https://graylab.jhu.edu/PyRosetta.documentation/pyrosetta.toolbox.rcsb.html
pyrosetta.toolbox.rcsb.load_fasta_from_rcsb(pdb_code, fasta_outfile=None)¶. Downlaod a FASTA file from RCSB and write it to disk.
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19 Carya_illinoinensis.mainGenome.fasta - PECAN TOOLBOX
https://pecantoolbox.nmsu.edu/node/10
mainGenome.fasta. Database Path, /home/lilcano/Carya_illinoinensis.mainGenome. Database Type, nucleotide. Whole Genome Viewer, Disabled ...
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20 The Sequence Manipulation Suite - Bioinformatics.org
https://www.bioinformatics.org/sms2/
-Reverse Complement · -Split Codons · -Split FASTA · -Three to One · -Window Extractor DNA · -Window Extractor Protein. Sequence Analysis.
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21 NGS TOOLBOX - of the small RNA group
https://www.smallrnagroup.uni-mainz.de/software/TBr2_documentation.pdf
perl TB2.1_basic-analyses.pl -help. Scripts that accept both FASTA and FASTQ input format will automatically check the format of the input file. Tools (for ...
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22 TBtools: An Integrative Toolkit Developed for Interactive ...
https://www.sciencedirect.com/science/article/pii/S1674205220301878
Navigate to the “Fasta Stats” function: Sequence Toolkit → Fasta Tools → Fasta Stats. 4. Set the above genome sequence file as input. 5. Set ...
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23 FormatSeq - MPI Bioinformatics Toolkit
https://toolkit.tuebingen.mpg.de/tools/formatseq
A3M · FASTA (default) · CLUSTAL · No elements found. Consider changing the search query. · List is empty.
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24 FASTA - My Biosoftware – Bioinformatics Softwares Blog
https://mybiosoftware.com/tag/fasta
FaBox 1.61 – Online FASTA Sequences Toolbox ... The toolbox is expected to grow on the basis of requests for particular services and converters in the ...
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25 Convert - ONLINE ANALYSIS TOOLS
https://molbiol-tools.ca/Convert.htm
Online Analysis Tools - a range of resouces for converting files from one format ... Denmark) - an online fasta sequence toolbox, including Fasta header ...
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26 maskfasta — bedtools 2.30.0 documentation - Read the Docs
https://bedtools.readthedocs.io/en/latest/content/tools/maskfasta.html
bedtools maskfasta masks sequences in a FASTA file based on ... -soft, Soft-mask (that is, convert to lower-case bases) the FASTA sequence.
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27 FASTX-Toolkit - Bioinformatics Home
https://bioinformaticshome.com/tools/rna-seq/descriptions/FASTX-Toolkit.html
FASTX-Toolkit consists of a collection of tools for pre-processing data from FASTA and FASTQ files. The FASTX-Toolkit includes the following tools (not ...
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28 FASTA format - The Yang Zhang Lab
https://zhanggroup.org/FASTA/
Sequences are expected to be represented in the standard IUB/IUPAC amino acid and nucleic acid codes, with these exceptions: lower-case letters are accepted and ...
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29 the toolbox
https://pflanzenproteomik.de/
Use at your own risk! There are no tracking cookies and we only log the default apache stuff for troubleshooting. Fasta ↔ Excel. Converts your FASTA file into ...
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30 NGS-TOOLBOX / Wiki / Home - SourceForge
https://sourceforge.net/p/ngs-toolbox/wiki/Home/
This toolbox comprises simple and handy Perl scripts for processing of next generation sequencing ... Converts sequence files from FASTQ to FASTA format.
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31 FaBox: an online toolbox for FASTA sequences - University of Guelph
https://ocul-gue.primo.exlibrisgroup.com/discovery/openurl?institution=01OCUL_GUE&rfr_id=info:sid%252Fprimo.exlibrisgroup.com-bX-Bx&rft_val_fmt=info:ofi/fmt:kev:mtx:&rft.epage=968&rft.volume=7&rft_id=info:doi/&rfr_id=info:sid/primo.exlibrisgroup.com-3973791-Bx&rft.isbn_list=&rft.jtitle=Molecular%20ecology%20notes&rft.genre=article&rft.issue=6&rft.auinit1=P&rft.aulast=Villesen&rft.auinit=P&rft.date=2007&rft.eisbn_list=&rft.spage=965&rft.au=Villesen,%20P.&rft.atitle=FaBox:%20an%20online%20toolbox%20for%20FASTA%20sequences&rft.issn=1471-8278&rft.eissn=1471-8286&svc_dat=CTO&vid=01OCUL_GUE:GUELPH
ISSN: 1471-8278 , 1471-8286 ,. , Molecular ecology notes. , 2007, Vol.7(6), p.965-968 ,. FaBox: an online toolbox for FASTA sequences Available Online ...
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32 Fasta - BITS wiki - VIB
https://wiki.bits.vib.be/index.php/Fasta
FastA is an algorithm for sequence similarity searching in databases. ... http://www.ebi.ac.uk/Tools/sss/fasta/help/index.html ...
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33 SeqScrub: a web tool for automatic cleaning and annotation of ...
https://www.future-science.com/doi/10.2144/btn-2018-0188
Outputs – four selectable text boxes that contain the following, in FASTA format: cleaned sequences; sequences with illegal characters; ...
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34 FASTA-4x 4 port PCI-x SATA 3G Host Adapter - CalDigit
https://archive.caldigit.com/FASTA-4x.asp
FASTA-4x features high speed SATA 3G connection at 3Gbps bandwidth and allows users to ... A Fibre Channel solution requires an expensive RAID storage box, ...
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35 Reformatting - T-Coffee Tutorials
https://tcoffee.org/Projects/tcoffee/workshops/tcoffeetutorials/reformating.html
T_Coffee provides also a tool box for cleaning, trimming, reformating or comparing your data: fasta files, multiple sequences alignments, trees (Newick format), ...
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36 FASTA Upload - Illumina
https://www.illumina.com/products/by-type/informatics-products/basespace-sequence-hub/apps/biobam-bioinformatics-s-l-fasta-upload.html
Upload nucleotide or peptide sequences in FASTA format to your BaseSpace projects.
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37 Converting FASTQ format to FASTA - Bioinformatics Workbook
https://bioinformaticsworkbook.org/dataWrangling/fastaq-manipulations/converting-fastq-format-to-fasta.html
There are several ways you can convert fastq to fasta sequences. ... fastq_to_fasta is available in the FASTX-toolkit that scales really well with the huge ...
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38 EBI Tools: Blast, Fasta, Sequence Analysis, Homology ...
http://morissardjerome.free.fr/infobiogen/www.ebi.ac.uk/Tools/index.html
EBI Toolbox The European Bioinformatics Institute (EBI) toolbox area provides a comprehensive range of tools for the field of bioinformatics.
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39 FastQC A Quality Control tool for High Throughput Sequence ...
https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
Fixed a bug when analysing empty files; Added support for multi-read fast5 files; Fixed a corner case bug in adapter detection; Bundled a JRE with the OSX ...
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40 FaBox: an online toolbox for fasta sequences - Impactio
https://www.impactio.com/publication/818558294
FaBox: an online toolbox for fasta sequences. 2007 | JOURNAL DOI: 10.1111/J.1471-8286.2007.01821.X. « ‹ … 0 … › » Encountered difficulties in your research?
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41 miniFasta · PyPI
https://pypi.org/project/miniFasta/
A simple FASTA read and write toolbox for small to medium size projects ... FASTA files are text-based files for storing nucleotide or amino acid sequences.
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42 Sequence alignments | UniProt help
https://www.uniprot.org/help/sequence-alignments
Enter either protein sequences in FASTA format or UniProt identifiers into ... To add sequences to your alignment, a text box just after the ...
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43 IPHC-Galaxy change log
https://iphc-galaxy.u-strasbg.fr/static/changelog.html
Updated the tool 'Fasta toolbox' to version 1.3.2: Fasta file names can be longer and more characters are allowed. Updated the tool 'Kegg' to version 1.1.1: ...
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44 Protein Modeling Tutorial - Godzik Lab
http://godziklab.org/SSBC/modeling.html
Use free public tools to predict protein structure via comparative modeling ... Copy all of the text on the linked page; In this case, the FASTA sequence ...
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45 Plasmid toolbox descriptions - GeneCorner
https://www.genecorner.ugent.be/smsabout.html
Description of tools for DNA and protein sequence manipulation. ... Use Combine FASTA, for example, when you wish to determine the codon usage for a ...
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46 sRNAtoolbox: a collection of small RNA analysis tools
https://arn.ugr.es/srnatoolbox/
Currently the toolbox comprises the following methods: ... or at least species with an available genome assembly or fasta-formatted annotations.
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47 Fasta - Sequence Analysis - Weizmann Institute of Science
https://bip.weizmann.ac.il/toolbox/seq_analysis/basic/fasta.html
Breadcrumbs. Toolbox; >; Sequence Analysis; > Similarity Searching: Basic. FASTA. FASTA - for database similarity search ...
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48 Alternative to fastaread function in matlab - Stack Overflow
https://stackoverflow.com/questions/12589823/alternative-to-fastaread-function-in-matlab
I am trying to run matlab code which uses the function fastaread , available in the bioinformatics toolbox which I lack.
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49 Protein FASTA Database Handling - Galaxy Training!
https://training.galaxyproject.org/training-material/topics/proteomics/tutorials/database-handling/tutorial.html
Using Protein Database Downloader tool . Using a direct weblink to the database. Uploading a database from the data library. In this tutorial, we will explore ...
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50 Bioinformatics Toolbox - Index of /
http://cda.psych.uiuc.edu/matlab_pdf/bioinfo_ug.pdf
conceptual model for working with the toolbox and your biological data. “What Is the Bioinformatics ... to a file using the FASTA format ( fastawrite).
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51 FAS Center: Change files (UNIX)
http://archive.sysbio.harvard.edu/CSB/resources/computational/scriptome/UNIX/Tools/Change.html
Once you have run this script, you can use the many Scriptome tools that work on tab-separated data. Note: translating to FASTA format and back will generate a ...
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52 Usage - MT-Toolbox - Google Sites
https://sites.google.com/site/moleculetagtoolbox/usage
filter_results_non_contaminants.fasta - A FASTA file with OTU representative sequences for all OTUs not classified as contaminants. These are the microbial OTUs ...
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53 DNA Sequences and Maps Tool - NEB
https://international.neb.com/tools-and-resources/interactive-tools/dna-sequences-and-maps-tool
› ... › Interactive Tools
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54 PREPARE A REFERENCE GENOME - STARTbio
https://artbio.github.io/startbio/Run-Galaxy/Preparing_reference/
You may also use The tool search box. Fill the form of Pick Fasta sequences. Source file: 11. Regex Find And Replace on data 10; for a: Check list of ...
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55 DNA Sequence formats - Genomatix
https://www.genomatix.de/online_help/help/sequence_formats.html
A sequence file in FASTA format can contain several sequences. ... Some Genomatix tools, e.g. Gene2Promoter or GPD allow the extraction of sequences.
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56 Run Fasta, Eat Pasta: 2022 HiTOPS Princeton Half Marathon
https://www.princetonhalfmarathon.com/RaceGroups/7368/Groups/941232
Run Fasta, Eat Pasta ... Fundraisers. Top Team Fundraisers · Top Individual Fundraisers · Fundraising Tool Box. DONATE. Become a Fundraiser.
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57 Pairwise sequence alignment using FASTA (Procedure)
https://vlab.amrita.edu/?sub=3&brch=274&sim=1434&cnt=2
There are four steps require to run FASTA program. Step 1: Specify the tool input (sequence and database). Step 2: Entering of input sequence.
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58 Running the "QC for Target Sequencing" tool
https://resources.qiagenbioinformatics.com/manuals/clccancerresearchworkbench/200/index.php?manual=Running_QC_Target_Sequencing_tool.html
Running the "QC for Target Sequencing" tool. The tool is found in the Toolbox: Toolbox | Quality Control ( Image quality_control_closed_16_n_p ) ...
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59 Enveomics collection | FastA.filter.pl - Kostas lab
http://enve-omics.ce.gatech.edu/enveomics/docs?t=FastA.filter.pl
A toolbox for microbial genomics and metagenomics ... Extracts a subset of sequences from a FastA file. ... Subset*: out_file FastA file to be created.
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60 Fasta Pasta Microwave Cooker - Walmart
https://www.walmart.com/c/kp/fasta-pasta-microwave-cooker
Shop for Fasta Pasta Microwave Cooker at Walmart.com. Save money. ... VOSS Easy Microwave Pasta Cooker Dual-purpose Draining The Water Box Storage Box.
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61 ARNold, finding terminators at I2BC - Web Server
http://rssf.i2bc.paris-saclay.fr/toolbox/arnold/
Paste one or more nucleic acid sequences in FASTA format (max 5Mb): ... Macke T, Ecker D, Gutell R, Gautheret D, Case DA and Sampath R. (2001) RNAMotif – A ...
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62 YASS : genomic similarity search tool - Bonsai Bioinformatics
https://bioinfo.lifl.fr/yass/
Like most of the heuristic pairwise local alignment tools for DNA sequences (FASTA, BLAST, PATTERNHUNTER, BLASTZ/LASTZ, LAST ...), YASS uses seeds to detect ...
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63 FAST Analysis of Sequences Toolbox - metacpan.org
https://metacpan.org/pod/FAST
The default data exchange format is multifasta (specifically, a restriction of BioPerl FastA format). FASTQ format is supported. FAST is designed for ...
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64 a toolbox for tree inference using multi-scale clustering of a set ...
https://academic.oup.com/bioinformatics/article-abstract/37/21/3947/6294927
We introduce MNHN-Tree-Tools, a high performance set of algorithms that builds multi-scale, nested clusters of sequences found in a FASTA file.
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65 SeqKit: A Cross-Platform and Ultrafast ... - Semantic Scholar
https://pdfs.semanticscholar.org/4f55/d6d95090c46b65d40ca3ea027d6113a381d6.pdf
FASTA was introduced first in FASTA software [1], and FASTQ was origi- ... In this work, we present a novel FASTA/Q command-line toolkit, ...
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66 SoyBase
https://soybase.org/
Enter sequence below in FASTA format. Or load an Example Sequence. ... Click Here For The Full BLAST Interface. SoyBean Breeder's Toolbox Quick JumpHELP ...
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67 BLAST - OmicsBox User Manual
https://manual.omicsbox.biobam.com/user-manual/omicsbox-modules/module-functional-analysis/blast
OmicsBox uses the Basic Local Alignment Search Tool (BLAST) to find ... Database section one can see how to prepare and blast locally an own fasta database.
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68 Protein Encoding: A Matlab toolbox of representing or ...
https://www.jocpr.com/articles/protein-encoding-a-matlab-toolbox-of-representing-or-encoding-protein-sequences-as-numerical-vectors-for-bioinformatics.pdf
In bioinformatics, fasta is a common format for the records of amino acid sequences. Each record is composed of a heading line with '>' as the start element and ...
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69 Bioinformatics Toolbox - The MathWorks - PDF Catalogs
https://pdf.directindustry.com/pdf/mathworks/bioinformatics-toolbox/12865-370504.html
Using toolbox functions, you can read genomic and proteomic data from standard file formats such as SAM, FASTA, CEL, and CDF, as well as from online ...
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70 Filter sequences by ID - Galaxy | Tool Shed
https://toolshed.g2.bx.psu.edu/repository/display_tool?repository_id=4963efc937542d6d&render_repository_actions_for=tool_shed&tool_config=%2Fsrv%2Ftoolshed%2Fmain%2Fvar%2Fdata%2Frepos%2F000%2Frepo_18%2Ftools%2Fseq_filter_by_id%2Fseq_filter_by_id.xml&changeset_revision=141612f8c3e3
By default it divides a FASTA, FASTQ or Standard Flowgram Format (SFF) file in two, ... provide them as a parameter (type or paste them into the text box).
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71 Fasta Pasta Kitchen Tools and Gadgets for sale - eBay
https://www.ebay.com/b/Fasta-Pasta-Kitchen-Tools-and-Gadgets/20635/bn_77266033
Get the best deals on Fasta Pasta Kitchen Tools and Gadgets when you shop ... Fasta Pasta Microwave Cooker & Strainer As Seen on Rachel Ray Red New Open Box.
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72 Genome Annotation Service - BV-BRC
https://www.bv-brc.org/docs/quick_references/services/genome_annotation_service.html
The Genome Annotation Service uses the RAST tool kit, RASTtk, for bacteria and the Viral Genome ORF Reader (VIGOR4) for viruses. The service accepts a FASTA ...
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73 ProtParam tool - Expasy
https://web.expasy.org/protparam/
ProtParam (References / Documentation) is a tool which allows the ... Or you can paste your own amino acid sequence (in one-letter code) in the box below:.
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74 converting multisample vcf to fasta - GATK - Broad Institute
https://gatk.broadinstitute.org/hc/en-us/community/posts/360070002671-converting-multisample-vcf-to-fasta
I have posted on Biostars about this but have no replies. How can I use the GATK tool kit to convert a multisample VCf file to a fasta...
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75 BLAST: Compare & identify sequences - NCBI Bioinformatics ...
https://guides.lib.berkeley.edu/ncbi/blast
Enter the query sequence in the search box, provide a job title, choose a database to query, and click BLAST: ...
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76 Files · master · Schramlová Barbora / Bioinformatics_toolbox · GitLab
https://gitlab.mff.cuni.cz/schramlb/bioinformatics_toolbox/-/tree/master
All functions are accessible from the command line or via python. Processing FASTA files. Prompt and input parameters are displayed after typing toolbox fasta ...
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77 Create a Multiple Sequence Alignment - SnapGene
https://support.snapgene.com/hc/en-us/articles/10384284242452-Create-a-Multiple-Sequence-Alignment
SnapGene provides four third-party alignment tools that you can use to ... Use the check boxes to specify the algorithm/s you wish to use.
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78 MBEToolbox: a Matlab toolbox for sequence data analysis in ...
https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-6-64
MBEToolbox requires a single ASCII file containing the nucleotide or amino acid sequence alignment in either PHYLIP [1], CLUSTALW [2] or fasta ...
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79 pdb2fasta - CS-Rosetta
https://csrosetta.chemistry.ucsc.edu/node/1330
You are here. Home » CS-Rosetta Manual » Application Reference (Toolbox) ... Description: obtain fasta sequences from provided pdb-files ...
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80 Biopython Tutorial and Cookbook
http://biopython.org/DIST/docs/tutorial/Tutorial.html
So, let's look at how the Biopython tools can help us. ... In this case our example FASTA file was from the NCBI, and they have a fairly well ...
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81 The FASTA program package Introduction
https://fasta.bioch.virginia.edu/wrpearson/fasta/fasta_guide.pdf
multi-core machines, FASTA can be faster than BLAST while producing ... //ftp.ncbi.nlm.nih.gov/toolbox/ncbi_tools++/BIN/CURRENT/datatool) ...
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82 Menu Tools: Editor - GyDB org
https://gydb.org/index.php/Menu_Tools:_Editor
This tool is for selecting a set of selected sequences (or their fasta ... MOV as it is in figure) in the 'Search' box and then to choose a Filter options.
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83 MCB Toolbox - Tianyi@Oxford
https://tshi.page/ox/tutorial/mcb-toolbox.html
This tool takes in two sequences (plain text or FASTA or SnapGene .dna file), one representing the cloning site and the other representing the ...
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84 A software tool-box for analysis of regulatory RNA elements
https://www.hsls.pitt.edu/obrc/index.php?page=URL1118696303
The RNA analyzer collects general and specific information on any submitted RNA sequence or batch of sequences in FASTA format.
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85 Get started — BLAST tutorial documentation
https://staff.fnwi.uva.nl/l.fokkens/get_started.html
Note that if you want to download a fasta with protein sequences ... In this container using man to access the manual pages of a tool doesn't work.
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86 gig-toolbox-api & deutschebahn.com:fasta Integration | Ants & Apps
https://antsandapps.com/apps/Inceptionpad/integrations/deutschebahn-com-4362/
Connect gig-toolbox-api to deutschebahn.com:fasta with a seamless Ants & Apps integration! Automate your routine work and save time and money.
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87 FASTX-Toolkit - SciCrunch | Research Resource Resolver
https://scicrunch.org/resolver/SCR_005534
Proper Citation: FASTX-Toolkit (RRID:SCR_005534). Description: Software tool as collection of command line tools for Short-Reads FASTA/FASTQ files ...
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88 Swiss-Prot - gpmaw
https://www.gpmaw.com/html/swiss-prot.html
... as such an absolute requirement in the toolbox of any protein chemist. ... Select the “Swiss-Prot” button to create a FastA-formatted ...
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89 Adding Databases - Geneious
https://assets.geneious.com/manual/2022.1/static/GeneiousManualsu149.html
To create a database from the sequences in a FASTA file, go to Tools ... Database and select Custom BLAST from the Service drop-down box (Figure 16.5 ).
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90 Multiple Sequence Alignment - CLUSTALW - GenomeNet
https://www.genome.jp/tools/clustalw/
Support Formats: FASTA (Pearson), NBRF/PIR, EMBL/Swiss Prot, GDE, CLUSTAL, and GCG/MSF. Or give the file name containing your query ...
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91 Create FASTA sequences for Phased Haplotypes
http://genometoolbox.blogspot.com/2013/07/create-fasta-sequences-for-phased.html
Here is some Python code I put together to convert a .haps file (and associated .sample file) into a .fasta file with an entry for each ...
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92 fasta - Sequence Similarity Searching
http://lilab2.sysu.edu.cn/Tools/sss/fasta/
This tool provides sequence similarity searching against protein databases using the FASTA suite of programs. FASTA provides a heuristic search with a ...
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93 Sequence cleanup or formatting - Reverse complement
http://reverse-complement.com/cleanup.html
Cleanup ignores existing numbers, spaces and line ends. The tool accepts both nucleotide and protein sequences. Check UPPER CASE to change all sequence letters ...
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94 Using the RAST tool kit in batch mode - PATRIC Documentation
https://docs.patricbrc.org/cli_tutorial/rasttk_batch_mode.html
If you were annotating your own genomes, the process would be the same. You would first need to convert your contigs in fasta format into genome typed objects ...
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95 Phylogenetic tree (newick) viewer - ETE Toolkit
http://etetoolkit.org/treeview/
This is an online tool for phylogenetic tree view (newick format) that allows multiple sequence alignments to be shown together with the trees (fasta ...
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