Alternatives and similar repositories for MpGAP

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

• compgenomicslab / TreeProfiler
  tree visualization for tree + annotation data
  ☆45Updated 6 months ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 6 months ago
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆45Updated this week
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆69Updated last month
• moshi4 / MGCplotter
  Microbial Genome Circular plotting tool for comparative genomics using Circos
  ☆38Updated 2 years ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆87Updated 3 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆96Updated 3 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 2 months ago
• shandley / hecatomb
  hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
  ☆60Updated 3 months ago
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆63Updated 6 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆34Updated last year
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 2 months ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆57Updated 2 weeks ago
• nf-core / genomeassembler
  Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads
  ☆31Updated last month
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• shenwei356 / unikmer
  A versatile toolkit for k-mers with taxonomic information
  ☆81Updated 4 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆46Updated 2 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• pauloluniyi / VGEA
  VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.
  ☆20Updated 4 years ago
• hsinnan75 / GSAlign
  GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
  ☆60Updated last year
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• LANL-Bioinformatics / PhaME
  Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…
  ☆33Updated 2 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
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆66Updated 3 years ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated 4 months ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆32Updated last year
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated last month