genome-sequencing

Python library to facilitate genome assembly, annotation, and comparative genomics

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls

[THIS REPO IS DEPRECATED] see newer repos: https://github.com/broadinstitute/viral-core https://github.com/broadinstitute/viral-assemble https://github.com/broadinstitute/viral-phylo https://github.com/broadinstitute/viral-classify https://github.com/broadinstitute/viral-pipelines

KubeGene - A turn-key Genome Sequencing workflow management framework

DNA sequencing analysis notes from Ming Tang

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

A modern genomics framework for julia

Bioinformatics on GCP, AWS or Azure

Pan-genomic sequence analysis

A collection of publications on comparison of high-throughput sequencing technologies.

TREDPARSE: HLI Short Tandem Repeat (STR) caller

Allele-specific copy number estimation with whole genome sequencing

Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data

FQSqueezer - FASTQ compressor based on k-mer statistics

ChromeQC: Summarize sequencing library quality of 10x Genomics Chromium linked reads

This is a pipeline describing how I assembled the complete genome of the freshwater angelfish, Pterophylllum scalare.

Extensible full DAG streaming computation server with services and jobs for RNA-Seq, Tn-Seq, WG-Seq and Term-Seq.

Assembled Phi-X174 genome using Overlap Graph, Kmer Composition and De-Bruijn Graph.