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awesome-nextflow

A curated list of nextflow based pipelines

bio-tools-setup

Util scripts to set up bioinformaic tools/packages.

compgen2021

ddir

An R package to access to Omics Discovery Index API

dnm_chd

enriquea

Config files for my GitHub profile.

exomeqc-hail-gnomad

Code repository for sample and variant qc for Sanger cohorts using hail and gnomad qc code.

feser

feseR: Combining feature selection methods for analyzing omics data

fsspark

Feature selection in Spark

gene_lists

List of gene lists for genomic analyses.

gnomad_hail

Hail helper functions for gnomAD/MacArthur lab

hail

Scalable genomic data analysis.

hitzlab

hpoworkbench

Human Phenotype Ontology Workbench

ibaqpy

Absolute quantification package based on MSsstats output and Quantms

kentutils

UCSC command line bioinformatic utilities

learningpyspark

Code base for the Learning PySpark book (in preparation)

lollipops

Lollipop-style mutation diagrams for annotating genetic variations.

mrmd

multiomics-configs

Set of config files for species, taxonomies, etc

patterns

A curated collections of Nextflow implementation patterns -- http://nextflow-io.github.io/patterns/index.html

pepbed

The pepBed R-package allow to process bed and bigBed files from peptide evidences

pgatk

PGATK: ProteoGenomics Analysis ToolKit

pgdb

ProteomeGenomics Database Creation - Nextflow Pipeline

pir

Comparison of different isoelectric point algorithms for proteins and peptides

pquantr

R package for protemics downstream a analysis

proteomics-metadata-standard

The Proteomics Experimental Design file format: Standard for experimental design annotation

py-pgatk

Python tools for proteogenomics analysis toolkit

pyvatk

Variant Annotator ToolKit

rarecomb

R package to perform combinatorial analysis of rare variants