hoelzer

hoelzer's Stars

• toml-lang/toml

  Tom's Obvious, Minimal Language

  19.6k324522858

• hediet/vscode-drawio

  This unofficial extension integrates Draw.io (also known as diagrams.net) into VS Code.

  Language:TypeScript9.2k61312424

• gamcil/clinker

  Gene cluster comparison figure generator

  Language:Python545159271

• ryanlayer/samplot

  Plot structural variant signals from many BAMs and CRAMs

  Language:Python5341211567

• agshumate/Liftoff

  An accurate GFF3/GTF lift over pipeline

  Language:Python448715554

• kishwarshafin/pepper

  PEPPER-Margin-DeepVariant

  Language:Python2441019742

• AstrobioMike/GToTree

  A user-friendly workflow for phylogenomics

  Language:Shell204119726

• smarco/WFA-paper

  Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment

  Language:C200142716

• nanoporetech/ont_fast5_api

  Oxford Nanopore Technologies fast5 API software

  Language:Python151187729

• pirovc/genome_updater

  Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy

  Language:Shell14614315

• KatyBrown/CIAlign

  Language:Python1195279

• replikation/What_the_Phage

  WtP: Phage identification via nextflow and docker or singularity

  Language:Nextflow103715115

• roblanf/sarscov2phylo

  Global phylogenies of SARS-CoV-2 sequences

  Language:Shell8691522

• will-rowe/genome-sketching

  online notebooks for a review of genome sketching

  Language:Jupyter Notebook604110

• ncbi/rapt

  Read Assembly and Annotation Pipeline Tool

  55241717

• dib-lab/charcoal

  Remove contaminated contigs from genomes using k-mers and taxonomies.

  Language:Python53191631

• fmfi-compbio/deepnano-blitz

  Very fast ONT basecaller

  Language:Rust526412

• artic-network/civet

  Cluster Investigation & Virus Epidemiology Tool

  Language:Python49812814

• R-CoderDotCom/Awesome-R-packages

  A curated list 📄 of awesome 🌟 R packages 🌟 (WORK IN PROGRESS)

  32308

• grst/nxfvars

  Access nextflow variables from python scripts or notebooks

  Language:Python2139

• AlgoLab/shark

  Mapping-free software for fishing relevant reads in an RNA-Seq sample

  Language:C++18401

• rnajena/viralclust

  Small pipeline to cluster viral genomes based on their k-mer content. WiP

  Language:Nextflow162215

• cbg-ethz/ngshmmalign

  ngshmmalign is a profile HMM aligner for NGS reads designed particularly for small genomes (such as those of RNA viruses like HIV-1 and HCV) that experience substantial biological insertions and deletions

  Language:C++10455

• erikalmecdc/ecdc_virology

  Public virology code from ECDC bioinformatics

  Language:Python7523

• jnoms/virORF_direct

  virORF_direct: Protein-level analysis of direct RNA sequencing data

  Language:Python3101

• VirologyCharite/sars2seq

  A Python library and command-line scripts for working with SARS-CoV-2 sequences

  Language:Python2770