Bioinformatics

List of Computer Science courses with video lectures.

Data Apps & Dashboards for Python. No JavaScript Required.

Official git repository for Biopython (originally converted from CVS)

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

A curated list of awesome Bioinformatics libraries and software.

A DSL for data-driven computational pipelines

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

Conda recipes for the bioconda channel.

Single-cell analysis in Python. Scales to >1M cells.

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Official code repository for GATK versions 4 and up

A full spaCy pipeline and models for scientific/biomedical documents.

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

Toolkit for processing sequences in FASTA/Q formats

Data intensive science for everyone.

Pytorch Repo for DeepGCNs (ICCV'2019 Oral, TPAMI'2021), DeeperGCN (arXiv'2020) and GNN1000(ICML'2021): https://www.deepgcns.org

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

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

Robust, flexible and resource-efficient pipelines using Go and the commandline