Alternatives and similar repositories for SMaSH:

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

• cortes-ciriano-lab / ReConPlot
  ☆21Updated last month
• LappalainenLab / lorals
  ☆33Updated last year
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago
• huangnengCSU / longcallR
  LongcallR is a small variant caller for single molecule long-read RNA-seq data
  ☆42Updated 3 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…
  ☆21Updated 4 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆30Updated last year
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆18Updated 3 years ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆25Updated 7 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
• kensung-lab / INSurVeyor
  An insertion caller for Illumina paired-end WGS data.
  ☆23Updated 5 months ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆39Updated 4 months ago
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆13Updated last year
• asoltis / MutEnricher
  Somatic coding and non-coding mutation enrichment analysis for tumor WGS data
  ☆10Updated 3 years ago
• molgenis / CoNVaDING
  Copy Number Variation Detection In Next-generation sequencing Gene panels was designed for small (single-exon) copy number variation (CNV…
  ☆20Updated 4 years ago
• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆29Updated last month
• ZhaiLab-SUSTech / snuupy
  single-nucleus nanopore reads processing pipeline
  ☆15Updated last year
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆24Updated 9 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• pughlab / ConsensusCruncher
  ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…
  ☆20Updated 2 years ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆17Updated 2 months ago
• heinc1010 / BAMixChecker
  BAMixChecker: A fast and efficient tool for sample matching checkup
  ☆14Updated 2 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆31Updated 3 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, …
  ☆40Updated 3 months ago
• XiDsLab / TAGET
  ☆17Updated 2 years ago
• aakechin / cutPrimers
  curPrimers is a tool for trimming primer sequences from amplicon based NGS reads
  ☆17Updated 5 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated last year
• liusihan / seGMM
  A new tool to infer sex from massively parallel sequencing data.
  ☆16Updated 7 months ago
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆15Updated this week
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago