Alternatives and similar repositories for santa-sim:

Users that are interested in santa-sim are comparing it to the libraries listed below

• thednainus / Bayesian_tutorial
  Tutorial on Bayesian phylogenetic analysis
  ☆46Updated 7 years ago
• evolbioinfo / booster
  ☆28Updated 4 years ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆67Updated 3 months ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆26Updated last week
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆50Updated 4 months ago
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆47Updated last month
• SamStudio8 / reticulatus
  A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
  ☆69Updated 3 years ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆66Updated last year
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆73Updated 3 weeks ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆57Updated 7 months ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆44Updated 8 months ago
• drostlab / orthologr
  Genome wide orthology inference and dNdS estimation
  ☆90Updated last year
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆55Updated 7 months ago
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆82Updated 2 years ago
• evolgeniusteam / EvolviewDocumentation
  Documentation for Evolview
  ☆26Updated 3 years ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆24Updated last year
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆47Updated 3 years ago
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆76Updated last month
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆30Updated last year
• benjaminhgood / LTEE-metagenomic
  Time-resolved metagenomic sequencing of Lenski's long-term evolution experiment with Escherichia coli
  ☆23Updated 6 years ago
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆75Updated 2 weeks ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆88Updated 4 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆44Updated 4 months ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆61Updated last year
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆114Updated 11 months ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆91Updated last month
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆74Updated 2 weeks ago
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆56Updated last year