Alternatives and similar repositories for longranger:

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

• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆45Updated this week
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated 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
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 2 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆51Updated 5 years ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 3 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• jbelyeu / SV-plaudit
  Pipeline for structural variant image curation and analysis.
  ☆48Updated 3 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 3 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 6 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 4 months ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆40Updated last year
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 6 months ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 2 months ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• treangenlab / methphaser
  MethPhaser: methylation-based haplotype phasing of human genomes
  ☆45Updated 7 months ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• LappalainenLab / lorals
  ☆33Updated last year
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆45Updated 2 years ago
• rvolden / Mandalorion-Episode-II
  Version II of Mandalorion
  ☆32Updated 6 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆58Updated 4 months ago
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆43Updated 2 years ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆35Updated 8 months ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 5 years ago
• WGLab / LongGF
  A computational algorithm and software tool for fast and accurate detection of gene fusion by long-read transcriptome sequencing
  ☆21Updated 3 years ago
• ksahlin / ultra
  Long-read splice alignment with high accuracy
  ☆61Updated 5 months ago
• a-slide / pycoMeth
  DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets
  ☆34Updated 4 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆47Updated 5 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago