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CHANGELOG.md

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Change Log

All notable changes to the misc tools will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[0.3.1] - 2022-02-10

Added

  • Helper for working with peptide datasets

[0.3.0] - 2020-03-29

This version includes numerous updates to the internal structure of the code, adding initial sphinx documentation, and adding the package to PyPI.

This version includes renaming the package from pybio-utils to pylifesci.

[0.2.5] - 2017-12-08

Updated

  • Remove deprecated function call from mygene_utils

[0.2.4] - 2017-10-26

Updated

  • Version specifications for prereqs

[0.2.3] - 2017-07-27

Updated

  • Updated download-srr-files to use misc.shell_utils and http rather than ftp

[0.2.2] - 2017-06-14

Fixed

  • References to old gtf functions in misc.bio

[0.2.1] - 2017-06-14

Fixed

  • All references to misc.bio and misc.bio_utils. Please see Issue #1 in the new repo for more details.

[0.2.0] - 2017-05-31

This is a new version which moves the project from Bitbucket to GitHub. Additionally, the other utilities (misc.***) have been completely removed. They will be added to a new pymisc-utils repository.

[0.1.6] - 2017-05-10

Fixed

  • Missing import in counting alignments for bam files

[0.1.5] - 2017-05-09

Updated

  • get-read-length-distribution script to handle bam, fasta and fastq files. See the bio docs for more details.

[0.1.4] - 2017-05-09

Removed

  • bed, bam and gtf helpers from bio.py. These had already been deprecated for quite some time.

[0.1.3] - 2017-03-30

Added

  • Script to remove duplicate entries from bed files. See the bio docs for more details.

[0.1.2] and previous versions

The initial versions have not been documented in the change log.