Alternatives and similar repositories for snp-pipeline

Users that are interested in snp-pipeline are comparing it to the libraries listed below

• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆56Updated 4 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• marbl / harvest
  ☆53Updated 4 years ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆73Updated 2 months ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆62Updated 5 years ago
• Shamir-Lab / Recycler
  This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…
  ☆58Updated 4 years ago
• fanglab / mbin
  mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads
  ☆25Updated 2 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆76Updated 9 years ago
• zheminzhou / PEPPAN
  Phylogeny Enhanded Prediction of PAN-genome
  ☆42Updated 5 years ago
• metagenomics / denbi-nanopore-training
  de.NBI Nanopore Training Course
  ☆20Updated 3 months ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated 2 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 5 years ago
• OpenGene / UniqueKMER
  Generate unique KMERs for every contig in a FASTA file
  ☆48Updated 3 years ago
• mdcao / npScarf
  ☆26Updated 5 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• naturalis / wgs2ncbi
  Toolkit for preparing genomes for submission to NCBI
  ☆29Updated 4 years ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆71Updated 5 years ago
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆45Updated 2 years ago
• biovcnet / topic-functional-annotation
  A repository for the lessons and notebooks used for Binder tutorials
  ☆14Updated 4 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• sirselim / guppy_parameter_optimiser
  A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate
  ☆30Updated 3 years ago
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆42Updated 8 years ago
• cerebis / bin3C
  Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.
  ☆24Updated 3 months ago
• rhysf / Synima
  Synteny Imager
  ☆64Updated 2 months ago
• z0on / GO_MWU
  Rank-based Gene Ontology analysis of gene expression data
  ☆42Updated 2 years ago
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated last month