roko-t

yolov5

YOLOv5 🚀 in PyTorch > ONNX > CoreML > TFLite

influential-cs-books

Most influential books on Computer Science/programming

gosseract

Go package for OCR (Optical Character Recognition), by using Tesseract C++ library

STAR

RNA-seq aligner

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

sra-tools

SRA Tools

salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

kallisto

Near-optimal RNA-Seq quantification

amesh

みんなだいすき東京アメッシュ！

abyss

:microscope: Assemble large genomes using short reads

STAR-Fusion

STAR-Fusion codebase

genozip

A modern compressor for genomic files (FASTQ, SAM/BAM/CRAM, VCF, FASTA, GFF/GTF/GVF, 23andMe...), up to 5x better than gzip and faster too

bulk2space

a spatial deconvolution method based on deep learning frameworks, which converts bulk transcriptomes into spatially resolved single-cell expression profiles

nanomonsv

SV detection tool for nanopore sequence reads

deML

Maximum likelihood demultiplexing

PeripheryPlots

A multivariate time series viewer React component.

sratoolkit

SRAToolkit has been REPLACED - see README

compression-benchmark

urWGS

Ultra rapid nanopore whole genome sequencing pipeline, published in https://www.nature.com/articles/s41587-022-01221-5

Bayexer

A Demultiplexing Tool for Illumina Sequencers

VGE

Virtual Grid Engine

GenomonVirusChecker

software for checking the virus sequences in fastq files

ebvsimulation

Monte-Carlo simulation for intragenic EBV deletions

BioSequenceGraphs.jl