Alternatives and similar repositories for pavian:

Users that are interested in pavian are comparing it to the libraries listed below

• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆303Updated 3 weeks ago
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆399Updated last week
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆330Updated last year
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆338Updated 2 weeks ago
• malonge / RagTag
  Tools for fast and flexible genome assembly scaffolding and improvement
  ☆495Updated last year
• 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…
  ☆391Updated last month
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆416Updated last year
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆221Updated 4 years ago
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆330Updated last week
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆488Updated last week
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆596Updated 10 months ago
• DaehwanKimLab / centrifuge
  Classifier for metagenomic sequences
  ☆255Updated 5 months ago
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆278Updated 3 months ago
• rrwick / Porechop
  adapter trimmer for Oxford Nanopore reads
  ☆353Updated 10 months ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆316Updated 9 months ago
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆338Updated 2 years ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆354Updated 2 years ago
• nanoporetech / medaka
  Sequence correction provided by ONT Research
  ☆442Updated 5 months ago
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆362Updated 6 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆323Updated last year
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆255Updated 2 months ago
• ParBLiSS / FastANI
  Fast Whole-Genome Similarity (ANI) Estimation
  ☆397Updated last year
• wdecoster / NanoPlot
  Plotting scripts for long read sequencing data
  ☆463Updated last month
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆219Updated 2 years ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆209Updated last year
• TransDecoder / TransDecoder
  TransDecoder source
  ☆285Updated 5 months ago
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆584Updated 7 months ago
• nf-core / ampliseq
  Amplicon sequencing analysis workflow using DADA2 and QIIME2
  ☆195Updated last week
• biobakery / MetaPhlAn
  MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data
  ☆328Updated last week
• mummer4 / mummer
  Mummer alignment tool
  ☆487Updated last month