Alternatives and similar repositories for svviz2:

Users that are interested in svviz2 are comparing it to the libraries listed below

• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 4 months ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated last month
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆44Updated 2 years ago
• VCCRI / SVPV
  Structural Variant Prediction Viewer
  ☆33Updated 7 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆58Updated 4 months ago
• GeneDx / scramble
  ☆39Updated 9 months ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆45Updated this week
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆46Updated 4 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 6 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆59Updated last year
• stephenfloor / extract-transcript-regions
  For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…
  ☆34Updated last year
• fakedrtom / SVAFotate
  ☆39Updated 5 months ago
• billzt / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆48Updated 4 years ago
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆39Updated 2 years ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆41Updated last week
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 5 months ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆36Updated this week
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆65Updated 2 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated 5 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆137Updated 8 months ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆73Updated 3 weeks ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆34Updated last month
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated 9 months ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• fansalon / TEspeX
  TEspeX - pipeline for Transposable Elements expression quantification
  ☆20Updated last year
• zd1 / telseq
  A software for calculating telomere length
  ☆68Updated 6 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆54Updated last month