Alternatives and similar repositories for VariantAnnotation

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

• clindet / anor
  anor: an annotation and visualization system based on R and Shiny framework
  ☆33Updated 5 years ago
• lawremi / rtracklayer
  R interface to genome annotation files and the UCSC genome browser
  ☆35Updated 2 months ago
• ilarsf / gwasTools
  Basic and fast GWAS functions for QQ and Manhattan plots (incl. gene names)
  ☆32Updated 3 months ago
• BaderLab / EnrichmentMapApp
  The EnrichmentMap Cytoscape App allows you to visualize the results of gene-set enrichment as a network.
  ☆35Updated 11 months ago
• Genentech / midasHLA
  R package enabling statistical association analysis and using immunogenetic data transformation functions for HLA amino acid fine mapping…
  ☆13Updated last year
• immunogenomics / HLA_analyses_tutorial
  A thorough tutorial on HLA imputation and association, accompanying our manuscript "Tutorial: A statistical genetics guide to identifying…
  ☆69Updated 11 months ago
• Bioconductor / Rsamtools
  Binary alignment (BAM), FASTA, variant call (BCF), and tabix file import
  ☆28Updated 3 weeks ago
• carpentries-incubator / bioc-rnaseq
  Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
  ☆23Updated last week
• Bioconductor / GenomicFeatures
  Query the gene models of a given organism/assembly
  ☆27Updated last month
• BIMSBbioinfo / pigx_rnaseq
  Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline
  ☆20Updated 8 months ago
• jorainer / ensembldb
  This is the ensembldb development repository.
  ☆35Updated last month
• andrewparkermorgan / argyle
  An R package for import, QC and analysis of Illumina Infinium genotyping arrays
  ☆35Updated 7 years ago
• MCorentin / vargen
  VarGen is an R package designed to get a list of variants related to a disease. It just need an OMIM morbid ID as input and optionally a…
  ☆17Updated last year
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆39Updated 3 years ago
• UW-GAC / GENESIS
  GENetic EStimation and Inference in Structured samples (GENESIS): Statistical methods for analyzing genetic data from samples with popula…
  ☆39Updated last month
• statgen / locuszoom-standalone
  Create regional association plots from GWAS or meta-analysis
  ☆61Updated 5 years ago
• RajLabMSSM / ggLocusZoom
  Create LocusZoom-style plots in R.
  ☆22Updated 2 years ago
• Shians / Glimma
  Glimma R package
  ☆50Updated last year
• neurogenomics / orthogene
  🧬 o r t h o g e n e 🧬✨✨✨✨✨✨✨ Interspecies gene mapping✨✨✨✨✨ 🦠 🔁 🌱 🔁 🌳 🔁 🍎 🔁 🍊 🔁 🪱 🔁 🪰 🔁 🐟 🔁 🦎 🔁 🐓 🔁 🦇 🔁 🐄 🔁 �…
  ☆45Updated 6 months ago
• kdkorthauer / dmrseq
  R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
  ☆61Updated 4 months ago
• oliviasabik / RACER
  An R package for generating comparative regional association plots
  ☆18Updated 9 months ago
• atgu / hgdp_tgp
  ☆43Updated 2 months ago
• waldronlab / cBioPortalData
  Integrate the cancer genomics portal, cBioPortal, using MultiAssayExperiment
  ☆33Updated 2 months ago
• kaustubhad / fastman
  An R package for fast and efficient visualizing of GWAS results using Q-Q and Manhattan plots directly from PLINK output files.
  ☆39Updated 9 months ago
• sonali-bioc / UncertaintyRNA
  This github repository contains code to reproduce the analysis in our paper "Variability in estimated gene expression among commonly used…
  ☆28Updated last year
• lpantano / DEGreport
  Create a cromphensive report of DEG list coming from any analysis of RNAseq data
  ☆26Updated last year
• Bioconductor / GenomicRanges
  Representation and manipulation of genomic intervals
  ☆46Updated this week
• NBISweden / workshop-epigenomics-RTDs
  workshop website on readthedocs
  ☆20Updated this week
• CompEpigen / methrix
  An R for fast and flexible DNA methylation analysis
  ☆34Updated 2 months ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 8 months ago