Data

Tools

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Applications

Experiments

Open Sustainable Technology

https://github.com/alexandrovlab/sigprofilerextractor

SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
bioinformatics cancer-genomics mutation-analysis mutational-signatures somatic-variants
Added: over 1 year ago - Last Synced: 11 months ago - Created: August 30, 2018

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
  • Fork? false
  • Main Language: Python
  • Commits: 387
  • Committers: 9
  • Issues: 124
  • Pull Requests: 33
  • Owner: AlexandrovLab
  • Stars: 146
  • Forks: 51
  • Packages: 4
  • Downloads: 2,009
https://github.com/shixiangwang/sigminer

🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R https://shixiangwang.github.io/sigminer/reference/index.html
bayesian-nmf bioinformatics cancer-research cnv copynumber-signatures cosmic-signatures dbs easy-to-use indel mutational-signatures nmf nmf-extraction r sbs signature-extraction somatic-mutations somatic-variants visualization
Added: over 1 year ago - Last Synced: 11 months ago - Created: December 30, 2018

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
  • Fork? false
  • Main Language: R
  • Commits: 1144
  • Committers: 8
  • Issues: 99
  • Pull Requests: 18
  • Owner: ShixiangWang
  • Stars: 134
  • Forks: 18
  • Packages: 1
  • Downloads: 841
https://github.com/hku-bal/clairs-to

ClairS-TO - a deep-learning method for tumor-only somatic variant calling
bioinformatics deep-learning genomics illumina long-read-sequencing long-reads nanopore ont pacbio snvs somatic-mutations somatic-variants tumor-only tumors variant-calling variants
Added: over 1 year ago - Last Synced: 11 months ago - Created: November 07, 2023

  • Relevant topics? true
  • External users? true
  • Open source license? true
  • Active? true
  • Fork? false
  • Main Language: Python
  • Commits: 76
  • Committers: 6
  • Issues: 1
  • Pull Requests: 2
  • Owner: HKU-BAL
  • Stars: 32
  • Forks: 2
  • Packages: 0