fbreitwieser / pavian

Related projects ⓘ

Alternatives and complementary repositories for pavian

• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆294Updated 4 months ago
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆382Updated last week
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆321Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆308Updated 5 months ago
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆324Updated 2 years ago
• malonge / RagTag
  Tools for fast and flexible genome assembly scaffolding and improvement
  ☆474Updated 9 months ago
• DaehwanKimLab / centrifuge
  Classifier for metagenomic sequences
  ☆250Updated last month
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆201Updated 2 years ago
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆567Updated 4 months ago
• 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 eu…
  ☆365Updated last week
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆452Updated last week
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆246Updated last month
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆314Updated last week
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆348Updated 2 months ago
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆321Updated 3 months ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆276Updated last month
• arpcard / rgi
  Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…
  ☆335Updated 2 months ago
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆264Updated last week
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆341Updated 2 years ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆202Updated 11 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆213Updated 3 years ago
• fritzsedlazeck / Sniffles
  Structural variation caller using third generation sequencing
  ☆561Updated last week
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆572Updated 6 months ago
• nf-core / ampliseq
  Amplicon sequencing analysis workflow using DADA2 and QIIME2
  ☆188Updated this week
• rrwick / Porechop
  adapter trimmer for Oxford Nanopore reads
  ☆340Updated 6 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆292Updated last year
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆384Updated last week
• ablab / quast
  Genome assembly evaluation tool
  ☆410Updated last week
• bioinformatics-centre / kaiju
  Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
  ☆272Updated 3 weeks ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆294Updated last year