Alternatives and similar repositories for igv-webapp

Users that are interested in igv-webapp are comparing it to the libraries listed below

• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆151Updated this week
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆172Updated last year
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆137Updated 2 years ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆107Updated 5 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆195Updated this week
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆154Updated last year
• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆162Updated last month
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆250Updated 4 months ago
• zwdzwd / transvar
  TransVar - multiway annotator for precision medicine
  ☆126Updated 2 years ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆89Updated 2 weeks ago
• Illumina / Nirvana
  The nimble & robust variant annotator
  ☆188Updated last year
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆146Updated 2 years ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆152Updated last year
• gatk-workflows / gatk4-germline-snps-indels
  Workflows for germline short variant discovery with GATK4
  ☆138Updated 4 years ago
• g2nb / igv-jupyter
  Extension for Jupyter which integrates igv.js
  ☆154Updated 2 years ago
• KarchinLab / open-cravat
  A modular annotation tool for genomic variants
  ☆138Updated this week
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆127Updated 3 years ago
• gagneurlab / drop
  Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
  ☆156Updated last week
• DiltheyLab / HLA-LA
  Fast HLA type inference from whole-genome data
  ☆139Updated 7 months ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆117Updated 11 months ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆267Updated last month
• nf-core / smrnaseq
  A small-RNA sequencing analysis pipeline
  ☆97Updated 5 months ago
• ncbi / TPMCalculator
  TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
  ☆132Updated last year
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆140Updated 2 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• imgag / ngs-bits
  Short-read and long-read sequencing tools for diagnostics
  ☆168Updated this week
• PacificBiosciences / ccs
  CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
  ☆125Updated last year
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆173Updated last year
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆143Updated 2 years ago