README.org

Python bioinformatic utilities

A set of various short scripts written in Python and used for sequence manipulation, gene ontology manipulation and such.

If you use those scripts and find any error, please report it!

Gene Ontology tools

See the README file in the gene_ontology folder.

Fasta CLI tools (fasta-cli-tools)

• uniq-fasta.py

  Script to report unique fasta sequences from one or several fasta files. Sequences are reported in the fasta format, using a hash of the sequence as the sequence name.

  Example usage:

  # For one input file
  python uniq-fasta.py mySeq.fasta -o myUniqSeq.fasta
  cat mySeq.fasta | python uniq-fasta.py > myUniqSeq.fasta
  # For several input files
  cat *.fasta | python uniq-fasta.py > myUniqSeq.fasta
      

Fasta sequence file tools

Those tools are in the sequences folder. Each script performs a very simple task.