Stars
A curated list of awesome Machine Learning frameworks, libraries and software.
Open source code for AlphaFold 2.
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
Single-cell analysis in Python. Scales to >100M cells.
RNAseq analysis notes from Ming Tang
Python library to facilitate genome assembly, annotation, and comparative genomics
python module to plot beautiful and highly customizable genome browser tracks
Phylogenetic orthology inference for comparative genomics
Tools to process and analyze deep sequencing data.
Structural variation caller using third generation sequencing
Plot structural variant signals from many BAMs and CRAMs
Sequence correction provided by ONT Research
Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction and differential geometry analyses
Software package for assigning SARS-CoV-2 genome sequences to global lineages.
HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
A PyTorch Basecaller for Oxford Nanopore Reads
Read-based phasing of genomic variants, also called haplotype assembly
Data and analysis for NA12878 genome on nanopore
Customizable workflows based on snakemake and python for the analysis of NGS data
GTEx & TOPMed data production and analysis pipelines
A genome visualization python package for comparative genomics
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Tool to plot synteny and structural rearrangements between genomes
Tool for plotting sequencing data along genomic coordinates.
Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments