Batch balanced KNN

Edit files from an ssh session in TextMate

Image-to-Image Translation in PyTorch

Image analysis scripts for conventional DNA and RNA FISH imaging

STORM movie analysis code

An Open Source Machine Learning Framework for Everyone

A system-level, binary package and environment manager running on all major operating systems and platforms.

MERlin is an extensible analysis pipeline applied to decoding MERFISH data

WebGL-based viewer for spatially-resolved transcriptomics data

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

Analysis Pipeline for Single Cell ATAC-seq

A fast and sensitive gapped read aligner

An ultrafast memory-efficient short read aligner

SPAdes Genome Assembler

Repo for counting stars and contributing. Press F to pay respect to glorious developers.

SRA Tools

Style guides for Google-originated open-source projects

R kernel for Jupyter

MAGIC - imputation and de-noising single-cell RNA seq data sets

Panoramic stitching of single cell data

cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data

R toolkit for single cell genomics

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

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

RNA-seq aligner

Easy interactive web applications with R

R wrapper for Van der Maaten's Barnes-Hut implementation of t-Distributed Stochastic Neighbor Embedding

The meme suite's fimo (find motif) as a microservice, written in python, with R and python clients

A versatile pairwise aligner for genomic and spliced nucleotide sequences