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academic-kickstart

Easily create a beautiful website using Academic and Hugo

asmfinder

find allele specific hemi-methylation sites from rrbs data

bcbio-nextgen

Validated, scalable, community developed variant calling and RNA-seq analysis

bcbio-nextgen-vm

Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines

bcbio.coverage

utils functions for exome coverage plots as quality controls

bcbio.rnaseq

Automatic RNA-seq DE caller benchmarking

bcbio.variation.recall

Parallel merging, squaring off and ensemble calling for genomic variants

bcbio_single_cell_workflow

bcbiornaseq

Quality control and differential expression for bcbio RNA-seq experiments.

bcbiosmallrna

R package to analyze data after small RNAseq with bcbio

bioc2019

BioC2019: Where Software and Biology Connect

biocstickers

Stickers for some Bioconductor packages - feel free to contribute and/or modify.

bioprojectr

project template for rstudio compatible with my everyday bioinformatics work

bosc2015

Content from BOSC2015 unconference sessions on building successful open source bioinformatics communities

cambridge-bio-developer-ladies

material we talk in our meet-ups

chbutils

Utility functions in R

chrom_map

Map between genome chromosome naming using https://github.com/dpryan79/ChromosomeMappings

cloudbiolinux

CloudBioLinux: configure virtual (or real) machines with tools for biological analyses

conda_r_skeleton_helper

Cleaning up Conda r-packages

coral

Classification of RNAs by Analysis of Length

custom_genome_annotation

some annotation that are not that standard but still useful

datasciencecoursera

Repo for the data science certificate at coursera

datasharing

The Leek group guide to data sharing

degreport

Create a cromphensive report of DEG list coming from any analysis of RNAseq data

dnapi

De novo adapter prediction algorithm for small RNA sequencing data

dummy

dummychapter1

Example of package using inst files in the vignette

eggs

new ideas that may fails or success about bioinformatics

fadapa

FAstqc DAta PArser - A minimal parser to parse FastQC output data.

fetchgeo

simple python script to download gene expression raw data files from NCBI's GEO (Gene expression omnibus)