Alternatives and similar repositories for k-SLAM

Users that are interested in k-SLAM are comparing it to the libraries listed below

• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆45Updated 2 years ago
• katholt / RedDog
  ☆36Updated 3 years ago
• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆27Updated 7 years ago
• sanger-pathogens / plasmidtron
  Assembling the cause of phenotypes and genotypes from NGS data
  ☆29Updated 5 years ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆69Updated 5 years ago
• sanger-pathogens / gff3toembl
  Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
  ☆29Updated 6 years ago
• emepyc / Blast2lca
  Calculates the lowest common ancestors of each query sequence in a Blast result
  ☆31Updated 7 years ago
• MadsAlbertsen / mmgenome
  Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes
  ☆27Updated 7 years ago
• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆57Updated 4 years ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆38Updated 8 months ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• dkoslicki / MetaPalette
  Metagenomic profiling and phylogenetic distances via common kmers
  ☆42Updated 3 years ago
• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆19Updated 4 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 3 months ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• tseemann / sixess
  🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files
  ☆24Updated 7 years ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆40Updated 5 years ago
• andersgs / harrietr
  An `R` package for various phylogenetic and evolutionary biology data manipulations
  ☆12Updated 7 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• laurentnoe / yass
  genomic alignment similarity search tool
  ☆18Updated last month
• sanger-pathogens / mlst_check
  Multilocus sequence typing by blast using the schemes from PubMLST
  ☆30Updated 3 years ago
• mdcao / npScarf
  ☆26Updated 5 years ago
• typhoidgenomics / genotyphi
  Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)
  ☆25Updated 8 months ago
• cboursnell / transfuse
  Merge transcriptome assemblies
  ☆31Updated 8 years ago
• combogenomics / medusa
  A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.
  ☆44Updated 4 years ago
• tseemann / mokka
  Annotate your metagenome assemblies
  ☆11Updated 6 years ago
• institut-de-genomique / NaS
  NaS is a hybrid approach developped to take advantage of data generated using MinION device. We combine Illumina and Oxford Nanopore tech…
  ☆15Updated 8 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year