mrajeev08

mrajeev08's Stars

• tseemann/cgmlst-dists

  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables

  Language:C276

• assemblerflow/flowcraft

  FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. :whale::package:

  Language:Python24244

• tsnorri/libbio

  Classes and functions for use with bioinformatics.

  Language:C++3

• richarddurbin/pbwt

  Implementation of Positional Burrows-Wheeler Transform for genetic data

  Language:C10238

• B-UMMI/fast-mlst

  Fast MLST searching and querying

  Language:C2

• kosukeimai/fastLink

  R package fastLink: Fast Probabilistic Record Linkage

  Language:R27448

• kosukeimai/MatchIt

  R package MatchIt

  Language:R21341

• rspatial/geodata

  download geographic data

  Language:R15715

• r-lib/rex

  Friendly regular expressions for R.

  Language:R33527

• ropensci/gittargets

  Data version control for reproducible analysis pipelines in R with {targets}.

  Language:R871

• phiresky/sql.js-httpvfs

  Hosting read-only SQLite databases on static file hosters like Github Pages

  Language:TypeScript3.5k105

• nextflow-io/patterns

  A curated collection of Nextflow implementation patterns

  Language:Nextflow33670

• gephi/gephi

  Gephi - The Open Graph Viz Platform

  Language:Java6k1.6k

• sql-js/sql.js

  A javascript library to run SQLite on the web.

  Language:JavaScript12.9k1.1k

• theosanderson/taxonium

  A tool for exploring large trees in the browser

  Language:JavaScript10220

• B-UMMI/Chewie-NS

  chewBBACA Nomenclature Server

  Language:Python71

• B-UMMI/chewBBACA

  BSR-Based Allele Calling Algorithm

  Language:HTML13828

• ajstamm/gatpkg

  Geographic Aggregation Tool (GAT) for R

  Language:R154

• rstudio/pointblank

  Data quality assessment and metadata reporting for data frames and database tables

  Language:R90056

• xavierdidelot/ClonalFrameML

  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes

  Language:C++11027

• ncbi/amr

  AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

  Language:C++28041

• kblin/ncbi-genome-download

  Scripts to download genomes from the NCBI FTP servers

  Language:Python969173

• bactopia/bactopia

  A flexible pipeline for complete analysis of bacterial genomes

  Language:Nextflow42373

• shap/shap

  A game theoretic approach to explain the output of any machine learning model.

  Language:Jupyter Notebook23.1k3.3k

• moodymudskipper/unglue

  Extract matched substrings using a pattern, similar to what package glue does in reverse

  Language:R1602

• CDCgov/MicrobeTrace

  The Visualization Multitool for Molecular Epidemiology and Bioinformatics

  Language:TypeScript8939

• jlp2duke/EnsCat

  R package and supporting documentation for ensembled hierarchical clustering of categorical data

  Language:R53

• lcrawlab/BANNs

  Code and simulations using biologically annotated neural networks

  Language:HTML213

• achtman-lab/GrapeTree

  GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/GrapeTree/MSTree_holder.html

  Language:JavaScript7927

• hyattpd/Prodigal

  Prodigal Gene Prediction Software

  Language:C45185