GitHub topics: indel
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
Language: R - Size: 56.4 MB - Last synced at: 18 days ago - Pushed at: 8 months ago - Stars: 151 - Forks: 19
Computational-Genomics-BSC/plink-bed-reader
Lightweight and memory efficient reader for PLINK BED files. It supports both SNP-major and individual-major formats. Written in Python.
Language: Python - Size: 3.96 MB - Last synced at: 8 days ago - Pushed at: 3 months ago - Stars: 3 - Forks: 0
gear-genomics/tracy
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
Language: C++ - Size: 4.73 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 107 - Forks: 21
Sydney-Informatics-Hub/GermlineShortV_biovalidation
Workflow for biological validation of germline SNP and indel variant datasets.
Language: Shell - Size: 143 KB - Last synced at: about 2 months ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0
stjude/indelPost
Python library for simple and complex indels.
Language: C - Size: 1.17 MB - Last synced at: 9 days ago - Pushed at: over 1 year ago - Stars: 13 - Forks: 3
EUCANCan/prepy-wrapper
Wrapper for pre.py from Illumina's hap.py package. It is used to preprocess VCF files in order to normalize SNVs and indels for downstream analysis.
Language: Python - Size: 25.4 KB - Last synced at: 4 days ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0
xjtu-omics/ChineseQuartetGenome
Genome assembly and variant benchmarks for Chinese Quartet
Language: Python - Size: 60.8 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 3 - Forks: 0
orangeSi/GSSplayground 📦
Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), add synteny among genome fragments or add crosslink among features, add short(PE/MP)/long reads(pacbio or nanopore) mapping or snpindel in vcf(not support complex sv yet), support all CIGAR of sam alignment, directly modify almost all features in Chrome by click the feature
Language: HTML - Size: 148 MB - Last synced at: 11 months ago - Pushed at: almost 5 years ago - Stars: 31 - Forks: 7
nickveltmaat/SNVcaller
Pipeline to call SNV's with 4 tools (VarDict, LoFreq, Mutect2 & SiNVICT)
Language: Python - Size: 193 KB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 1
TNTurnerLab/acorn
acorn is an R package that examines various features of de novo variants including subsetting DNVs by individual, variant type, or genomic region; calculating features including variant change counts, lengths, and presence/absence at CpG sites; and characteristics of parental age and number of DNVs.
Language: R - Size: 17 MB - Last synced at: almost 2 years ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0
