Alternatives and similar repositories for ultra

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

• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆46Updated 5 months ago
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated this week
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆38Updated 9 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• MeHelmy / princess
  ☆83Updated 9 months ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆69Updated 3 weeks ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆50Updated 6 years ago
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆58Updated 3 years ago
• KolmogorovLab / minda
  ☆25Updated 7 months ago
• treangenlab / methphaser
  MethPhaser: methylation-based haplotype phasing of human genomes
  ☆51Updated 9 months ago
• Maggi-Chen / FusionSeeker
  A gene fusion caller for long-read transcriptome sequencing data.
  ☆22Updated last year
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆34Updated 4 months ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 4 years ago
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆38Updated 8 months ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• lh3 / panmask
  Easy genomic regions for short-read variant calling
  ☆45Updated 3 months ago
• PacificBiosciences / pb-human-wgs-workflow-snakemake
  DEPRECATED - Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads
  ☆39Updated 2 years ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated 2 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆41Updated this week
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆41Updated 4 months ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆57Updated last year
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆52Updated 9 months ago
• timplab / nanopore-methylation-utilities
  ☆30Updated 4 years ago
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆56Updated 2 years ago
• cortes-ciriano-lab / ReConPlot
  ☆24Updated 11 months ago
• ISUgenomics / SequelTools
  new repo
  ☆28Updated 4 years ago