Fasta Converter Tool

Tip. 1. The headers in the input FASTA file must exactly match the chromosome column in the BED file.. 2. You can use the UNIX fold command to set the line width of the FASTA output. For example, fold-w 60 will make each line of the FASTA file have at most 60 nucleotides for easy viewing. 3. BED files containing a single region require a newline character at the end of the ...

https://bedtools.readthedocs.io/en/latest/content/tools/getfasta.html

One way of doing this is with two subcommands from the pyfastaq suite.. fastaq to_fake_qual in. fasta - fastaq fasta _to_fastq in. fasta - out.fastq The first tool , to_fake_qual, creates fake quality scores (default 40) for each base and the -sends that file (.qual) to stdout.The second tool , fasta _to_fastq, consumes both the original fasta and the quality scores coming from stdin and ...

https://bioinformatics.stackexchange.com/questions/11192/convert-fasta-to-fastq-with-dummy-quality-scores

With Galaxy one can easily use analysis tools through a web-based interface. If you're using the public Galaxy web-site , FASTX-toolkit tools are already available for general use. If you're running a local mirror of the galaxy server, follow the Installation instructions to integrate the tools into your Galaxy server.

http://hannonlab.cshl.edu/fastx_toolkit/galaxy.html

ABI to FASTA converter : ABI to FASTA Converter is a free tool will convert all (selected) ABI files to FASTA files. All you need to do is to locate your ABI chromatogram files and press the CONVERT button. Grid cell counter: Gird cell counter will help you to count faster the cells shown on computer's screen by displaying a grid over your image

http://dnabaser.com/download/Convertrix%20DNA%20sample%20converter/index.html

FASTA Canonical Sequences deletes comments from FASTA files. It can also change sequences by deleting specified characters or whitespace, introduce newlines for readibility, or change sequence case. Version 1.1. 2011 Jan 25. [ Show Version History]

https://www.ncbi.nlm.nih.gov/CBBresearch/Spouge/html_ncbi/html/fasta/canonical.html

The information that should be the defline of a FASTA record depends primarily on the tool (s) used to produce and analyze the data. GFF files are designed to hold annotations corresponding to sequences, most often genomic sequences such as chromosomes or (if it's a draft genome assembly) scaffolds or contigs.

https://bioinformatics.stackexchange.com/questions/6865/can-a-gff-file-be-converted-to-a-fasta-file

Various tools exist for converting a FASTQ file to FASTA format. However, a simple unix trick usually do the job. No need to download and install any software.

https://www.ecseq.com/support/ngs-snippets/convert-fastq-to-fasta-on-the-command-line

Handy tool that automates the sequence processing job. It can apply the following operations to the specified samples: trim untrusted ends, remove vectors, integrate metadata, convert chromatograms (SCF/ABI) to FASTA . GBK to FASTA converter : GenBank to FASTA is a freeware program will convert GenBank (gbk) file format to FASTA format.

http://www.dnabaser.com/help/tools-converters/Everything2%20FASTA%20converter/index.html

I am trying to use this tool to convert genes that are in excel to fasta format. I saved as tab delimited text and uploaded to galaxy, but I can't seem to choose my file when trying to use the tool . Any help would be most welcome.

https://biostar.usegalaxy.org/p/10387/

Utilities / Convert FASTQ to FASTA Description. Given a FASTQ file, this tool will convert it to FASTA format. Reads can be also filtered for unknown nucleotides (Ns), and sequence identifiers can be renamed as numbers.

https://chipster.csc.fi/manual/fastx-fastq-to-fasta.html

User Martin Čech wrote Answer: Need help with quot;FASTQ to FASTA quot; tool : You have to upload the files to the Galaxy first. Click the upload button in to top left corner under the Galaxy logo. Then select your files and hit start. After your files are in Galaxy you will be able to select them in the FASTQ to FASTA tool .

https://biostar.usegalaxy.org/p/8759/

Seqtk tools . # Convert FASTQ to FASTA . seqtk seq -a IN.fastq gt; OUT. fasta . # Convert FASTQ to FASTA and set bases of quality lower than 20 to N. seqtk seq -aQ64 -q20 ...

https://www.metagenomics.wiki/tools/fastq/convert-fastq-to-fasta

Compute reverse complement of the nucleotide sequence without sending it to the server, using browser own capabilities. Abiguity codes are converted as explained. Upper/lower case, FASTA header and unrecognized chars are preserved.

http://www.reverse-complement.com/

Download FASTA Conversion tool for free. A GUI tool (and Java library) to convert genetic sequences into FASTA format suitable for further processing.

https://sourceforge.net/projects/fastaconv-j/

SBOL Validator/Converter is a simple, easy-to-use software tool that allows for conversion between SBOL/GenBank FASTA files using the Synthetic Biology Open Language (SBOL) 2.0 data model. The motivation behind the SBOL Validator/Converter is to provide a universally-accepted tool with the capability to check the validity of files.

https://async.ece.utah.edu/tools/sbol-validatorconverter/

I am trying to use this tool to convert genes that are in excel to fasta format. I saved as tab delimited text and uploaded to galaxy, but I can't seem to choose my file when trying to use the tool . Any help would be most welcome.

https://biostar.usegalaxy.org/p/10387/