Alternatives and similar repositories for GAPIT

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

• BGI-shenzhen / LDBlockShow
  LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files
  ☆185Updated last month
• BGI-shenzhen / PopLDdecay
  PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files
  ☆193Updated 11 months ago
• xiaolei-lab / rMVP
  A Memory-efficient, Visualization-enhanced, and Parallel-accelerated Tool For Genome-Wide Association Study
  ☆305Updated 2 weeks ago
• showteeth / ggcoverage
  Visualize and annotate genomic coverage with ggplot2
  ☆260Updated 6 months ago
• TickingClock1992 / RIdeogram
  ☆179Updated 4 years ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆313Updated 2 years ago
• wwood / kingfisher-download
  Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.
  ☆274Updated 2 months ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆214Updated last year
• bernatgel / karyoploteR
  karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
  ☆331Updated 2 months ago
• YuLab-SMU / MicrobiotaProcess
  A comprehensive R package for deep mining microbiome
  ☆191Updated last month
• TongZhou2017 / itol.toolkit
  Helper Functions for Interactive Tree Of Life (iTOL)
  ☆172Updated 2 months ago
• YongxinLiu / Note
  ☆125Updated 3 years ago
• knausb / vcfR
  Tools to work with variant call format files
  ☆260Updated 5 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆218Updated last month
• JoniColeman / gwas_scripts
  Codebook from my GWAS cookbook
  ☆192Updated 3 years ago
• xuzhougeng / org.Osativa.eg.db
  ☆20Updated 5 years ago
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆140Updated 10 years ago
• YaoLab-Bioinfo / shinyCircos
  an R/shiny application for creation of Circos plot interactively
  ☆157Updated 2 years ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆234Updated this week
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆152Updated 11 months ago
• cafferychen777 / ggpicrust2
  Make Picrust2 Output Analysis and Visualization Easier
  ☆148Updated 2 weeks ago
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆112Updated 9 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆237Updated 3 weeks ago
• YongxinLiu / Metagenome
  Metagenome analysis pipeline
  ☆99Updated 4 years ago
• dzhang32 / ggtranscript
  Visualizing transcript structure and annotation using ggplot2
  ☆158Updated 11 months ago
• cxli233 / SimpleTidy_GeneCoEx
  A simple gene co-expression analyses workflow powered by tidyverse and graph analyses
  ☆206Updated last week
• xia-lab / MicrobiomeAnalystR
  A companion R package for the MicrobiomeAnalyst web server
  ☆127Updated last month
• taowenmicro / ggClusterNet
  Microbial ecological network visualization clustering
  ☆121Updated 4 months ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆296Updated 10 months ago
• ewels / sra-explorer
  Web application to explore the Sequence Read Archive.
  ☆218Updated 3 weeks ago