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aitac

awesome-public-datasets

A topic-centric list of high-quality open datasets in public domains. By everyone, for everyone!

bcbio-nextgen

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

bdds-piq

bdds-piq

btools

A series of scripts to automate the execution of commands within a cluster.

cloudbiolinux

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

cnvworkflow_code

CNV analysis workflow code for the manuscript

dauss75.github.io

deltamsi

DeltaMSI: AI-based screening for microsatellite instability in solid tumors

dockstore-tool-bamstats

A repo for the BAMStats command, used as the tutorial for Dockstore

dockstore-tool-md5sum

A very simple tool that just performs an md5sum

downsampling

Downsample fastq files in an automated way

downsampling-fastq

FASTQ downsampling using seqtk

elprep

elPrep: a high-performance tool for preparing sequence alignment/map files in sequencing pipelines.

ensembl-vep

The Variant Effect Predictor predicts the functional effects of genomic variants

fastahack

utilities for indexing and sequence extraction from FASTA files

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

fastq-multx

Demultiplexes a fastq.

fusioncatcher

Finder of Somatic Fusion Genes in RNA-seq data

galaxy-breakdancer

galaxy-metasv-0.5.3

galaxy-r3.2.5

R3.2.5

galaxy_10xgenomics_single-cell

gdc_snp

GDC SNP analysis using DNN

gene-outlier-detection

A Bayesian model for identifying gene expression outliers for individual single samples (N-of-1) when compared to a cohort of background datasets.

genefuse

Gene fusion detection and visualization

gg.help

globus_imputation

globus_microbiome

globus_sicer