Alternatives and similar repositories for StrainMetaSim

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

• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 2 years ago
• fbreitwieser / card-krakendb
  Scripts for creating a Kraken database from the Comprehensive Antibiotic Resistance Database
  ☆10Updated 9 years ago
• leoisl / bacterial_assembly_pipeline
  ☆11Updated last year
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 6 years ago
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆49Updated 2 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆15Updated 3 years ago
• KThorellGroup / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated last year
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated last year
• borenstein-lab / fishtaco
  FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…
  ☆24Updated 4 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Updated 9 months ago
• aweimann / traitar
  ☆22Updated 2 years ago
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• ansariazim / treeBreaker
  Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree
  ☆25Updated 7 years ago
• SwingOlive / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated 2 years ago
• lmlui / Jorg
  MAG Circularization Method
  ☆32Updated last month
• bcthomas / pullseq
  Utility program for extracting sequences from a fasta/fastq file
  ☆35Updated last year
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆39Updated last year
• niemasd / ViralConsensus
  Fast viral consensus genome reconstruction
  ☆25Updated 5 months ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆24Updated 2 years ago
• sharpton / shotmap
  A Shotgun Metagenome Annotation Pipeline
  ☆24Updated 8 years ago
• theiagen / public_health_bacterial_genomics
  ☆26Updated 2 years ago
• alexcritschristoph / VRCA
  Identifying ViRal and Circular content in metAgenomes
  ☆14Updated 7 years ago
• edgraham / BinSanity
  Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation
  ☆31Updated 4 years ago
• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆19Updated 4 years ago
• eclarke / komplexity
  A method of assessing sequence complexity based on kmer frequencies
  ☆33Updated 7 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆43Updated 5 years ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• sid-krish / rhometa
  metagenome population recombination rate estimation pipeline
  ☆12Updated last month