Pinned Repositories
backports.lzma
Backport of Python 3.3's standard library module lzma for LZMA/XY compressed files
biopython
My fork of the official Biopython repository, used for experimental branches etc
biopython_workshop
A basic introduction to Biopython, intended for a classroom based workshop. Now on Codeberg.
flake8-black
flake8 plugin to run black for checking Python coding style
flake8-rst-docstrings
flake8 plugin to validate Python docstrings as reStructuredText (RST)
galaxy_blast
Galaxy wrappers for NCBI BLAST+ and related BLAST tools.
longsight
Python code for capturing images from a webcam etc. Migrated to Codeberg.
mediawiki_to_git_md
Convert a MediaWiki export XML file into MarkDown as a series of git commits. Now on Codeberg.
pico_galaxy
Galaxy tools and wrappers for sequence analysis
picobio
Miscellaneous Bioinformatics scripts etc mostly in Python
peterjc's Repositories
peterjc/planets
Software Carpentry Training Example
peterjc/bioconda-utils
Utilities for building and managing bioconda recipes
peterjc/biom-format
The Biological Observation Matrix (BIOM) Format Project
peterjc/biopython-feedstock
A conda-smithy repository for biopython.
peterjc/blacken-docs
Run `black` on python code blocks in documentation files
peterjc/csvlens
Command line csv viewer
peterjc/DEPhT
Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences
peterjc/dev-docs
Developer documentation for QIIME 2
peterjc/docs-2
peterjc/flake8
flake8 is a python tool that glues together pycodestyle, pyflakes, mccabe, and third-party plugins to check the style and quality of some python code.
peterjc/git-novice
Version Control with Git
peterjc/Guidelines
Repository of the FAIR Biomedical Research Software (FAIR-BioRS) guidelines
peterjc/hpc-help
Help documentation for https://help.cropdiversity.ac.uk
peterjc/ialbert-bio
Bioinformatics utilities.
peterjc/jove-feedstock
A conda-smithy repository for jove.
peterjc/MASSTplus
peterjc/Mastodon-Bioinformatics
Most simple webapp to bulk follow bioinformatics accounts on Mastodon.
peterjc/matplotlib
matplotlib: plotting with Python
peterjc/MDT-INTR-EXP-MET
Economics behavioural experiments using oTree
peterjc/opam-feedstock
A conda-smithy repository for opam.
peterjc/pdoc
A simple command line tool and library to auto generate API documentation for Python libraries.
peterjc/primer3-py
Simple oligo analysis and primer design
peterjc/py2rs
A quick reference guide for the Pythonista in the process of becoming a Rustacean
peterjc/qiime2
Official repository for the QIIME 2 framework.
peterjc/qiime2.github.io
QIIME 2 project front page
peterjc/rstcheck
Checks syntax of reStructuredText and code blocks nested within it
peterjc/slipcover
Near Zero-Overhead Python Code Coverage
peterjc/sourmash
Quickly search, compare, and analyze genomic and metagenomic data sets.
peterjc/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
peterjc/ThreeDRNAseq
A pipeline for differential expression and differential alternative splicing analysis