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algodat

Algorithm & Data structures

awesome-selfhosted

This is a list of Free Software network services and web applications which can be hosted locally. Selfhosting is the process of locally hosting and managing applications instead of renting from SaaS providers.

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bcbio-nextgen

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

benchmarkingdiffexprandspl

Code for workflows for differential splicing and isoform expression comparison paper (Merino et al)

bio-viennangs

A Perl extension and collection of utilities for Next-Generation Sequencing (NGS) data analysis

bioconda-recipes

Conda recipes for the bioconda channel.

bioconda-utils

Utilities for building and managing bioconda recipes

biopython

Official git repository for Biopython (converted from CVS)

brasil2021

dagobah-training

Galaxy admin trainings for aspiring Skywalkers

dropseqpipe

A SingleCell RNASeq pre-processing pipeline built on snakemake

extract-transcript-regions

For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and CDS).

galaxy-data_source-examples

Examples of Galaxy data_source servers

galaxy-rna-workbench

Galaxy RNA workbench (de.NBI project)

galaxy-tours

Collection of Galaxy-tours

gcc_2017_the_rna_workbench

RNA workbench presentation, Galaxy Community Conference 2017

helferlein

Small scripts manly for NGS data analysis

monsda

MONSDA, Modular Organizer of Nextflow and Snakemake driven hts Data Analysis

monsda_companion

Repository for config files of published results

na12878

Data and analysis for NA12878 genome on nanopore

nf_modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

ngs-qc

SOP collection for NGS-QC

oh-my-zsh

A delightful community-driven (with 1,100+ contributors) framework for managing your zsh configuration. Includes 200+ optional plugins (rails, git, OSX, hub, capistrano, brew, ant, php, python, etc), over 140 themes to spice up your morning, and an auto-update tool so that makes it easy to keep up with the latest updates from the community.

pb-assembly

PacBio Assembly Tool Suite: Reads in ⇨ Assembly out

perlswitcher

pipeline-polya-diff

Pipeline for testing shifts in poly(A) tail lengths estimated by nanopolish

piwik-python-api

Piwik API for Python

rbcsummerschool

ribopop_probe_design

Design rRNA subtraction probes