Stars
91
Forks
16
Language
C#
Last Updated
Dec 15, 2023
Similar Repos
Repo | Language | Stars | Description | Updated At |
---|---|---|---|---|
C++ | 316 | Strelka2 germline and somatic small variant caller | Jun 01, 2023 | |
Common Workflow Language | 2 | CWL germline variant caller | Feb 18, 2023 | |
Common Workflow Language | 6 | CWL somatic variant caller | Apr 21, 2023 | |
C | 149 | Microassembly based somatic variant caller for NGS data | Aug 11, 2022 | |
R | 45 | Multi-sample somatic variant caller | Oct 19, 2022 | |
Common Workflow Language | 2 | Variant caller annotation repository. Outputs from variant germline and somatic callers need annotation to add … | Feb 17, 2021 | |
wdl | 3 | Workflows used for processing whole genome sequence data + germline variant calling. | Jul 19, 2022 | |
wdl | 117 | Workflows for germline short variant discovery with GATK4 | Mar 14, 2023 | |
C++ | 11 | v2.x of the microassembly based somatic variant caller | Aug 12, 2022 | |
R | 6 | Tumor-only variant calling | May 17, 2023 | |
wdl | 4 | Workflows for somatic short variant discovery with GATK4 | Jul 19, 2022 | |
HTML | 29 | Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses | May 06, 2022 | |
wdl | 48 | Workflows for processing RNA data for germline short variant discovery with GATK v4 and related … | Apr 26, 2023 | |
wdl | 46 | Workflows for processing RNA data for germline short variant discovery with GATK (v3+v4) and related … | Apr 14, 2023 | |
Python | 19 | Somatic indel discovery tool for tumor RNA-Seq data. | Dec 05, 2022 | |
Python | 2 | Validate prioritization of tumor-only variant calling | Jun 04, 2016 | |
Perl | 8 | Detect somatic variants from tumor and normal WGS/WXS data | Mar 27, 2023 | |
C++ | 2 | Structural variant and indel caller for mapped sequencing data | Aug 02, 2020 | |
C++ | 359 | Structural variant and indel caller for mapped sequencing data | May 27, 2023 | |
Nextflow | 186 | Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS … | Aug 16, 2022 | |
wdl | 4 | Workflows for germline short variant discovery with GATK4 optimized by Intel for on-premises infrastructure | Apr 12, 2021 | |
R | 45 | Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data | Aug 11, 2022 | |
C | 2 | Identifying significantly deleterious variants from germline variation and somatic mutational events | Apr 09, 2018 | |
Rust | 8 | Version 2 of the PROSIC caller for somatic variants. | Nov 26, 2021 | |
Python | 19 | Structural variant caller for low-depth long-read sequencing data | Feb 13, 2023 | |
Python | 17 | A variant caller for the GBA gene using WGS data | Mar 31, 2023 | |
wdl | 2 | Workflows used for germline short variant discovery in WGS data - replaced by https://github.com/microsoft/gatk4-genome-processing-pipeline-azure | Jul 19, 2022 | |
Scala | 3 | Tools for comparing somatic variant calling tools. | May 20, 2021 | |
Nextflow | 10 | Workflow for germline short variant discovery using GATK4 | Sep 12, 2022 | |
Python | 3 | A Snakemake workflow for germline variant burden analyses. | Mar 23, 2022 | |
Common Workflow Language | 2 | Repository for Germline CNV, SNV, and SV Tools and Workflows | Jul 19, 2023 | |
wdl | 51 | Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad … | Mar 24, 2023 | |
R | 3 | Tool for calling tumour-specific somatic copy number alterations from targeted sequencing data. This tool is … | Mar 08, 2022 | |
Python | 2 | Detecting somatic small variants in paired tumor and normal sequencing data with convolutional neural network | Nov 10, 2020 | |
Jupyter Notebook | 47 | DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using … | Mar 04, 2023 | |
C++ | 115 | microsatellite instability detection using tumor only or paired tumor-normal data | Apr 10, 2023 | |
Shell | 2 | Variant calling and PSMC workflows | Oct 22, 2023 | |
Python | 27 | SMRT-SV: Structural variant and indel caller for PacBio reads | Jan 28, 2023 | |
Python | 23 | A Rare Variant Caller for Array-based Genotyping | Aug 27, 2021 | |
Nextflow | 12 | Nextflow pipeline for Mutect2 somatic variant calling best practices | Jul 14, 2022 | |
Nextflow | 2 | Germline structural variant calling pipeline for short read WGS datasets | Jul 13, 2023 | |
HTML | 23 | Data and scripts for amplicon pipeline | May 12, 2022 | |
R | 2 | Statistics and visualization for amplicon data | Nov 01, 2023 | |
Shell | 12 | Copy number variant caller and depth visualization utility for PacBio HiFi reads | Apr 04, 2023 | |
None | 31 | Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data | Aug 29, 2022 | |
Python | 7 | SmartRNASeqCaller is a post-processing pipeline to improve germline variant calling from RNA-Seq data | Aug 24, 2021 | |
wdl | 6 | WDL workflows for variant calling and assembly using ONT | Apr 19, 2023 | |
C++ | 3 | Accurity is a computational method that infers tumor purity and tumor cell ploidy from tumor-normal … | Aug 05, 2020 | |
wdl | 2 | Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools | Jul 19, 2022 | |
wdl | 127 | Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools | Mar 29, 2023 |