Alternatives and similar repositories for lianti

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

• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• cortes-ciriano-lab / ReConPlot
  ☆22Updated 6 months ago
• TheJacksonLaboratory / SVE
  ☆51Updated 5 years ago
• lh3 / sgdp-fermi
  FermiKit small variant calls for public SGDP samples
  ☆17Updated 8 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years ago
• broadinstitute / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆25Updated 9 years ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 5 years ago
• hall-lab / sv-pipeline
  Pipeline for structural variation detection in cohorts
  ☆49Updated 3 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago
• churchill-lab / g2gtools
  Personal diploid genome creation and coordinate conversion
  ☆29Updated 2 months ago
• DecodeGenetics / popSTR
  PopSTR - A Population based microsatellite genotyper
  ☆33Updated last year
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• cauyrd / transIndel
  Indel caller for DNA-seq or RNA-seq
  ☆14Updated last year
• LosicLab / starchip
  Detection of Circular RNA and Fusions from RNA-Seq
  ☆32Updated 6 years ago
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆40Updated 3 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• riverlee / MitoSeek
  Seeking information like heteroplasmy, structure variants, etc. on Mitochondrial genome from next generation sequencing
  ☆40Updated 6 years ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆57Updated 3 years ago
• GregoryFaust / SVsim
  SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.
  ☆17Updated 7 years ago
• bjpop / methpat
  A program for summarising CpG methylation patterns
  ☆20Updated 8 years ago
• YingZhou001 / Immuannot
  Immuological gene typing and annotation for genome assembly
  ☆37Updated 3 months ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 9 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆40Updated 3 weeks ago
• slzhao / QC3
  QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
  ☆32Updated 9 years ago
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated 9 months ago
• ljdursi / mergevcf
  Python package and routines for merging VCF files
  ☆29Updated 4 years ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated last year