lskatz

lskatz's Stars

• AlDanial/cloc

  cloc counts blank lines, comment lines, and physical lines of source code in many programming languages.

  Language:Perl20.5k2127061k

• cmdcolin/awesome-genome-visualization

  A list of interesting genome browser and genome visualization programs

  Language:TypeScript9272710117

• r-lib/rig

  The R Installation Manager

  Language:Rust7201021922

• schneebergerlab/syri

  Synteny and Rearrangement Identifier

  Language:Cython370527538

• kcleal/gw

  Genome browser and variant annotation

  Language:C++2985268

• BigDataBiology/SemiBin

  SemiBin: metagenomics binning with self-supervised deep learning

  Language:Python129412812

• luizirber/nthash

  ntHash implementation in Rust

  Language:Rust35536

• genotoul-bioinfo/Binette

  A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.

  Language:Python333200

• gcgreenberg/LexicHash

  A novel method for sequence similarity estimation

  Language:Python284

• oxli-bio/oxli

  k-mers and the like

  Language:Python214340

• tseemann/scripts

  Miscellaneous Perl scripts from 20 years in microbial bioinformatics

  Language:Perl1710

• somme89/rapidNJ

  Fast implementation of the Neighbour-Joining method for phylogenetic inference

  Language:C++16178

• songlab-cal/swga2

  Language:Python152193

• stjacqrm/centroid

  tool to determine optimal refrerence genome given a set of fasta files

  Language:Python14003

• samuell/awesome-bioinformatics-gotchas

  Gotchas from the trenches of bioinformatics

  10322

• rpetit3/camlhmp

  🐪Classification through yAML Heuristic Mapping Protocol 🐪

  Language:Python9152

• CDCgov/BMGAP

  The Bacterial Meningitis Genome Analysis Platform, an analysis pipeline, ExpressJS API, and ReactJS webapp for the analysis and characterization of bacterial meningitis samples

  Language:Python76210

• amromics/amromics

  Antimicrobial Resistance Analysis

  Language:Python65

• CholGen/Vibecheck

  An easy-to-use program to assign O1 Vibrio cholerae genomes to canonical lineages using phylogenetic placement.

  Language:Jupyter Notebook612

• erinyoung/tulatyper

  Subtyping of Francisella tularensis subtypes

  Language:Shell6211

• cgps-group/cell-format

  5111

• microbio-hackathon-2024/bacterial-genomics-handbook

  Don’t Panic! Your Bacterial Genomics Handbook

  Language:SCSS5114

• pathogenwatch-oss/mlst

  The Pathogenwatch MLST/cgMLST assignment tool

  Language:JavaScript5111

• dfornika/core-typer

  A Core Genome MLST (cgMLST) Typing Tool

  Language:Python4200

• kloetzl/broken-bioinformatics-files

  4100

• ncezid-biome/trapical

  trapical: trapical rapidly aligns Pulsenet islolate core alleles

  Language:Python4301

• phac-nml/locidex

  Common search engine for similarity based typing applications

  Language:Python4413

• happykhan/mlsttype

  MLSType from Enterobase Tool Kit

  Language:Python3110

• ncezid-biome/AlleleCodes

  Python script(s) for assigning allele codes under current PulseNet nomenclature system in BioNumerics but as a command-line executable without BioNumerics dependencies

  Language:Python3001

• microbio-hackathon-2024/pathinder-client

  Language:Python2111