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
  ☆25Updated 2 years ago
• SilvioWeging / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated last year
• sanger-pathogens / panito
  Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment
  ☆16Updated 6 years ago
• fbreitwieser / card-krakendb
  Scripts for creating a Kraken database from the Comprehensive Antibiotic Resistance Database
  ☆10Updated 8 years ago
• vice87 / gam-ngs
  Genomic Assemblies Merger for NGS
  ☆26Updated last year
• zheminzhou / SPARSE
  Strain Prediction and Analysis with Representative SEquence
  ☆18Updated 2 months ago
• sharpton / shotmap
  A Shotgun Metagenome Annotation Pipeline
  ☆23Updated 7 years ago
• tseemann / mokka
  Annotate your metagenome assemblies
  ☆11Updated 6 years ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆18Updated 3 weeks ago
• aweimann / traitar
  ☆22Updated last year
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 3 years ago
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆21Updated 5 months ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆17Updated 11 months ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆20Updated 4 years ago
• photocyte / plot_mitochondrial_genome_with_CIRCOS
  ☆15Updated 7 years ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆17Updated 6 years ago
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 2 years ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• xmuyulab / Snipe
  Highly sensitive pathogen detection
  ☆12Updated 4 years ago
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆29Updated 2 years ago
• Magdoll / MagPhase
  Phasing for metagenomics using PacBio long reads
  ☆17Updated 3 years ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆36Updated 4 months ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆29Updated 5 years ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 3 weeks ago
• rrwick / genome_painter
  Paint genomes with taxa-specific k-mer probabilities
  ☆8Updated 6 years ago
• DaehwanKimLab / seqwho
  SeqWho - A reliable and rapid FASTQ(A) file classifier
  ☆11Updated 3 years ago
• zhaoc1 / nanoflow
  Bioinformatics pipeline for nanopore sequencing data
  ☆10Updated 6 years ago
• CAMI-challenge / CAMITAX
  CAMITAX: Taxon labels for microbial genomes
  ☆29Updated last year