Alternatives and similar repositories for SMaSH

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

• LappalainenLab / lorals
  ☆38Updated 2 years ago
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆20Updated 4 years ago
• cortes-ciriano-lab / ReConPlot
  ☆24Updated last year
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆51Updated 2 months ago
• gatk-workflows / gatk4-mitochondria-pipeline
  This repo is be archived, these workflows are still housed housed in the GATK repository under the scripts directory. The workflows are a…
  ☆22Updated 5 years ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• hoffmangroup / polyidus
  Polyidus provides a framework to catch chimeric DNA sequences with a tale of python
  ☆10Updated 2 years ago
• sdchandra / CNAclinic
  ☆26Updated last year
• KolmogorovLab / minda
  ☆26Updated 8 months ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆56Updated 2 weeks ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆34Updated 10 years ago
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆35Updated 3 months ago
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆55Updated 6 months ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• molgenis / CoNVaDING
  Copy Number Variation Detection In Next-generation sequencing Gene panels was designed for small (single-exon) copy number variation (CNV…
  ☆21Updated 5 years ago
• TheJacksonLaboratory / SVE
  ☆51Updated 6 years ago
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆70Updated 2 weeks ago
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆31Updated 4 months ago
• KhiabanianLab / All-FIT
  All-FIT - Allele-Frequency-based Imputation of Tumor Purity
  ☆18Updated 6 years ago
• babelomics / SMAca
  SMN1 copy-number and sequence variant analysis from next generation sequencing data
  ☆23Updated 3 weeks ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆29Updated last year
• monarch-initiative / Squirls
  Interpretable prioritization of splice variants in diagnostic next-generation sequencing
  ☆18Updated last year
• MarWoes / wg-blimp
  wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data
  ☆28Updated 3 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆53Updated last year
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆42Updated last year
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated 3 months ago
• pughlab / ConsensusCruncher
  ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…
  ☆21Updated 3 years ago
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆34Updated 2 months ago
• mortazavilab / lapa
  Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.
  ☆31Updated 2 years ago