Alternatives and similar repositories for SMaSH:

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

• dellytools / sansa
  Structural variant VCF annotation, duplicate removal and comparison
  ☆31Updated last month
• aakechin / cutPrimers
  curPrimers is a tool for trimming primer sequences from amplicon based NGS reads
  ☆16Updated 5 years ago
• cortes-ciriano-lab / ReConPlot
  ☆22Updated 4 months ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆27Updated 10 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 5 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 6 years ago
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆19Updated 4 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated last month
• rdemolgen / SavvySuite
  Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes
  ☆28Updated 9 months ago
• scottgigante / haplotyped-methylome
  Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation
  ☆23Updated 6 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆15Updated last year
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 9 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• SdeBlank / NanoFG
  Third-generation fusion gene detection
  ☆14Updated last year
• heinc1010 / BAMixChecker
  BAMixChecker: A fast and efficient tool for sample matching checkup
  ☆14Updated 2 years ago
• liusihan / seGMM
  A new tool to infer sex from massively parallel sequencing data.
  ☆16Updated 10 months ago
• Illumina / witty.er
  What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.
  ☆32Updated last year
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆30Updated last year
• ExpressionAnalysis / CNV_Radar
  CNV Rapid Aberration Detection And Reporting
  ☆12Updated 4 years ago
• LappalainenLab / lorals
  ☆33Updated last year
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆18Updated 2 months ago
• molgenis / CoNVaDING
  Copy Number Variation Detection In Next-generation sequencing Gene panels was designed for small (single-exon) copy number variation (CNV…
  ☆21Updated 4 years ago
• KhiabanianLab / All-FIT
  All-FIT - Allele-Frequency-based Imputation of Tumor Purity
  ☆17Updated 5 years ago
• hoffmangroup / polyidus
  Polyidus provides a framework to catch chimeric DNA sequences with a tale of python
  ☆8Updated last year
• adamewing / tebreak
  Find and characterise transposable element insertions
  ☆21Updated last year
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆20Updated 2 weeks ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• kensung-lab / INSurVeyor
  An insertion caller for Illumina paired-end WGS data.
  ☆23Updated 8 months ago
• TomSkelly / MatchAnnot
  Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.
  ☆23Updated 9 years ago