bio_io

A library for reading and writing common file formats used in bioinformatics like FASTA files
Manual

0.4.0 (2021-12-19)

Fixed

  • [Fasta.In_channel] can now read from fifos...e.g., you can pipe the output of gunzip -cdirectly into a program using the fasta parser and it will be okay.

Added

  • Added modules for MMseqs2 and BLAST (e.g., BLAST 6 tab-delimited output)

  • Added a couple of example programs in the examples directory

Changed

  • Fasta_in_channel is now Fasta.In_channel (breaking change)

  • Fasta_record is now Fasta.Record (breaking change)

  • Various non-breaking changes

0.3.0 (2021-09-26)

  • Add Cigar module for parsing CIGAR strings.

0.2.1 (2021-09-12)

  • Specify ppx_expect and ppx_inline_test as test dependencies rather than dev dependencies.

0.2.0 (2021-09-11)

  • Require Base rather than Core_kernel

  • Add seq_length and to_string_nl functions to Fasta_record module

0.1.2 (2021-08-04)

  • Added some benchmarks.

  • Sped up fasta parsing.

0.1.1 (2021-05-15)

  • Fixed the OCaml min. dependency to 4.08.

  • Fixed the lint errors in the opam-ci

0.1.0 (2021-05-14)

Initial release!