Search Results - RepositoryStats

16

160

bsd-3-clause

11

DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.

dna genome machine science genomics sequencing deepsomatic deep-learning bioinformatics somatic-variants somatic-mutations

Created 2023-10-11

14 commits to r1.8 branch, last one 2 months ago

lancet nygenome

33

154

other

14

Microassembly based somatic variant caller for NGS data

snvs indels debruijn-graph local-assembly cancer-genomics variant-callers somatic-mutations

Created 2016-02-03

172 commits to v1.1.x branch, last one 2 years ago

sigminer ShixiangWang

19

150

other

2

🌲 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

r cnv dbs nmf sbs indel easy-to-use bayesian-nmf visualization bioinformatics nmf-extraction cancer-research somatic-variants cosmic-signatures somatic-mutations signature-extraction copynumber-signatures mutational-signatures

Created 2018-12-30

1,261 commits to master branch, last one 3 months ago

DNA-seq-analysis crazyhottommy

61

142

unknown

14

DNA sequencing analysis notes from Ming Tang

cancer-genomes genome-sequencing somatic-mutations

Created 2015-08-28

246 commits to master branch, last one about a year ago

ClairS HKU-BAL

8

78

bsd-3-clause

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ClairS - a deep-learning method for long-read somatic small variant calling

ont snvs indels pacbio phasing genomics illumina nanopore haplotypes long-reads short-reads deep-learning bioinformatics somatic-variants somatic-mutations long-read-sequencing

Created 2021-07-29

762 commits to main branch, last one 2 months ago

Palimpsest FunGeST

19

70

unknown

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An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.

r nmf genomics clonality driver-events visualization bioinformatics nmf-extraction cancer-genomics cancer-research tumor-evolution somatic-mutations tumor-heterogeneity signature-extraction structural-variation mutational-signatures bioinformatics-analysis structural-variant-signatures

Created 2018-03-12

232 commits to master branch, last one 8 months ago

cardelino single-cell-genetics

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61

unknown

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Clone identification from single-cell data

scrna-seq single-cell gibbs-sampling clonal-clustering somatic-mutations

Created 2017-11-13

226 commits to main branch, last one 2 years ago

ClairS-TO HKU-BAL

4

58

bsd-3-clause

3

ClairS-TO - a deep-learning method for tumor-only somatic variant calling

ont snvs pacbio tumors genomics illumina nanopore variants long-reads tumor-only deep-learning bioinformatics variant-calling somatic-variants somatic-mutations long-read-sequencing

Created 2023-11-07

163 commits to main branch, last one 2 months ago

needlestack IARCbioinfo

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49

gpl-3.0

11

Multi-sample somatic variant caller

ngs docker nextflow pipeline samtools variants bam-files regression somatic-mutations negative-binomial-regression

Created 2015-06-16

981 commits to master branch, last one 5 years ago