sra topic

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

vanheeringen-lab

Package for fetching metadata and downloading data from SRA/ENA/GEO

saketkc

Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.

wwood

Pipeline to fetch metadata and raw FastQ files from public databases

nf-core

A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA

louiejtaylor

PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied annotations of the data sets can not be trusted, and so PARTIE all...

linsalrob

Interactive R package to quantify, analyse and visualise alternative splicing

nuno-agostinho

Builds a PEP from SRA or GEO accessions

pepkit

Bioinformatics analysis of SARS-CoV-2

davetang

GEO RNA-seq Experiments Processing Pipeline

uc-bd2k