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modules

monocle3-dockerfiles

Listing docker files used in https://hub.docker.com/u/hc27oclock

mothur

R package to work with output files from mothur

mpal-single-cell-2019

Publication Page for MPAL Paper 2019

multi-dendrix

multi-omics-cancer-benchmark

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

muse-tool

musica

MuSiCa - Mutational Signatures in Cancer

muto_wilson_ncomm_2020

Integrated snRNAseq and snATACseq of healthy kidney

needlestack

Multi-sample somatic variant caller

neoantigens

🏺 Exploring novel tumor epitope identification

neusomatic

NeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection

ngs-analysis

Fork of https://code.google.com/p/ngs-analysis

ngsxml

generating workflows with XML and XSLT

nichenet_livercellatlas

Scripts used for the Differential NicheNet analyses in the Liver Atlas paper Guilliams et al., Cell 2022

oneliners

Useful bash one-liners for bioinformatics.

panmyeloid

pdfs

Technically-oriented PDF Collection (Papers, Specs, Decks, Manuals, etc)

pdx-analysis-workflows

peakcalling

Benchmarking ChIP-seq peak callers

picard

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

puntseq

PuntSeq - Chasing the microbial diversity of Cambridge's freshwater

quantitative-chipseq-workshop

EuroBioc 2020 Workshop: ChIP and ATAC analysis with DiffBind

reademption

a pipeline for the computational evaluation of RNA-Seq data

refconstruction_supervisedcelltyping

Source code for "Evaluation of some aspects in supervised cell type identification for single-cell RNA-seq: classifier, feature selection, and reference construction".

rima_pipeline

rmats2sashimiplot

rna-seq-analysis

RNAseq analysis notes from Ming Tang

rnabio.org

website for the rnaseq course