https://github.com/ctskennerton/fx_tools

Very small utilities for interrogating fasta and fastq files
https://github.com/ctskennerton/fx_tools

bioinformatics fasta fastq sequence-analysis

Last synced: 6 months ago
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Very small utilities for interrogating fasta and fastq files

• Host: GitHub
• URL: https://github.com/ctskennerton/fx_tools
• Owner: ctSkennerton
• License: mit
• Created: 2017-11-13T09:42:51.000Z (almost 8 years ago)
• Default Branch: master
• Last Pushed: 2019-03-01T06:26:33.000Z (over 6 years ago)
• Last Synced: 2025-02-08T13:32:07.806Z (8 months ago)
• Topics: bioinformatics, fasta, fastq, sequence-analysis
• Language: C
• Homepage:
• Size: 18.6 KB
• Stars: 0
• Watchers: 3
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          
# fx_tools

Very small utilities for interrogating fasta and fastq files.

## facount

count the records in a fasta file. Equivelent to `grep -c '^>' file.fa`

## fqcount

count the records in a fastq file.

## fxfilter

only keep reads if they meet certain length of GC requirements

## fxsummary

Print tabular summary statistics on a whole file. The default columns

are count, sum, min, max, mean, median, n50

## fxuniq

remove records that have identical header names or sequences