Ackia

Ackia's Stars

• samtools/samtools

  Tools (written in C using htslib) for manipulating next-generation sequencing data

  Language:C1.6k1011.3k576

• shenwei356/seqkit

  A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

  Language:Go1.3k29432157

• brentp/mosdepth

  fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

  Language:Nim68622210100

• sourmash-bio/sourmash

  Quickly search, compare, and analyze genomic and metagenomic data sets.

  Language:Python467191.7k79

• malonge/RagTag

  Tools for fast and flexible genome assembly scaffolding and improvement

  Language:Python461818347

• metagenome-atlas/atlas

  ATLAS - Three commands to start analyzing your metagenome data

  Language:Python3681542697

• Gaius-Augustus/BRAKER

  BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes

  Language:Perl3482178379

• daler/pybedtools

  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")

  Language:Python29916293102

• wwood/CoverM

  Read coverage calculator for metagenomics

  Language:Rust2941116029

• marbl/merqury

  k-mer based assembly evaluation

  Language:Shell2761213419

• xiaolei-lab/rMVP

  :postbox: A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool For Genome-Wide Association Study

  Language:R265179769

• malonge/RaGOO

  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag

  Language:Python17068028

• ekg/seqwish

  alignment to variation graph inducer

  Language:C++143146318

• TimoLassmann/kalign

  A fast multiple sequence alignment program.

  Language:C12464029

• marbl/meryl

  A genomic k-mer counter (and sequence utility) with nice features.

  Language:C112114712

• oschwengers/platon

  Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

  Language:Python10664215

• chasewnelson/SNPGenie

  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

  Language:Perl102107237

• zstephens/neat-genreads

  NEAT read simulation tools

  Language:Python95129227

• giesselmann/nanopype

  Snakemake pipelines for nanopore sequencing data archiving and processing

  Language:Python8871215

• bioinformatics-centre/BayesTyper

  A method for variant graph genotyping based on exact alignment of k-mers

  Language:C++866547

• khyox/recentrifuge

  Recentrifuge: robust comparative analysis and contamination removal for metagenomics

  Language:Python866517

• adigenova/wengan

  An accurate and ultra-fast hybrid genome assembler

  Language:Perl8477714

• IARCbioinfo/BAM-tricks

  Tip and tricks for BAM files

  829010

• kensung-lab/hypo

  HyPo: Super Fast & Accurate Polisher for Long Read Genome Assemblies

  Language:C++586327

• quwubin/MFEprimer-3.0

  PCR Primer Quality Control

  5682515

• meglab-metagenomics/amrplusplus_v2

  MEGARes and AmrPlusPlus - A comprehensive database of antimicrobial resistance genes and user-friendly pipeline for analysis of high-throughput sequencing data

  Language:Groovy2514

• matdoering/openPrimeR

  An R Package for Multiplex PCR Primer Design and Analysis

  Language:R232196

• sheffield-bioinformatics-core/periscope

  A tool to quantify sub-genomic RNA (sgRNA) expression in SARS-CoV-2 artic network amplicon nanopore sequencing data.

  Language:Python165475

• niu-lab/gclust

  genome sized sequences clustering

  Language:C++13543

• matdoering/openPrimeRui

  **DEPRECATED** A Shiny Application for the openPrimeR R Package

  Language:R5123