Stars
14
Forks
5
Language
Perl
Last Updated
Jan 04, 2024
Similar Repos
| Repo | Language | Stars | Description | Updated At |
|---|---|---|---|---|
| Python | 2 | Detecting somatic small variants in paired tumor and normal sequencing data with convolutional neural network | Nov 10, 2020 | |
| Nextflow | 129 | Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing | Jan 28, 2023 | |
| Nextflow | 186 | Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS … | Aug 16, 2022 | |
| Perl | 3 | detect germline variants from normal samples | Sep 03, 2022 | |
| C++ | 3 | Accurity is a computational method that infers tumor purity and tumor cell ploidy from tumor-normal … | Aug 05, 2020 | |
| Python | 19 | Somatic indel discovery tool for tumor RNA-Seq data. | Dec 05, 2022 | |
| C++ | 115 | microsatellite instability detection using tumor only or paired tumor-normal data | Apr 10, 2023 | |
| Python | 2 | Processing and annotation of somatic structural variants | May 19, 2022 | |
| R | 7 | TOBI predicts somatic variants from .vcf or .bam input | Aug 27, 2021 | |
| C | 2 | Identifying significantly deleterious variants from germline variation and somatic mutational events | Apr 09, 2018 | |
| Nextflow | 20 | Call and score variants from WGS/WES of rare disease patients. | Aug 01, 2022 | |
| Perl | 2 | mapping somatic variants to cell barcodes in scRNA-Seq data | Sep 03, 2022 | |
| Python | 42 | Snakemake-based workflow for detecting structural variants in WGS data | Jul 31, 2022 | |
| Python | 55 | Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data | Jul 30, 2022 | |
| Python | 2 | Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data | Mar 13, 2024 | |
| C# | 88 | Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows. | May 15, 2023 | |
| Python | 11 | Pipeline to call somatic cancer neoantigens from mutations in patient tumor DNA | Mar 21, 2023 | |
| Python | 69 | A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, … | Mar 22, 2023 | |
| Python | 2 | pipeline for somatic single-nucleotide variants and small indels | Mar 03, 2023 | |
| Jupyter Notebook | 47 | DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using … | Mar 04, 2023 | |
| C | 2 | Software to detect single nucleotide variants from next generation sequencing data. | Feb 08, 2021 | |
| R | 109 | Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing. | Aug 04, 2022 | |
| Python | 2 | Concordance and contamination estimator for tumor-normal pairs | Jun 07, 2022 | |
| Python | 46 | Concordance and contamination estimator for tumor–normal pairs | Mar 26, 2022 | |
| Nextflow | 2 | Pipeline using facets for fraction and copy number estimate from tumor/normal sequencing | Jul 12, 2022 | |
| Python | 4 | WGS data and suppressor screening | Apr 25, 2022 | |
| C++ | 3 | A fast tool implemented in C++ for calling variants from large ultra low-pass (<1.0x) WGS … | Jan 21, 2022 | |
| Python | 2 | This a snakemake pipeline to detect Somatic mutations (GATK4 and Mutect2) | Nov 27, 2022 | |
| HTML | 2 | Estimate tumor purities from gene expression data | May 15, 2023 | |
| Python | 6 | A tool to detect tissue- and cancer- specific epigenetic signatures in WGS data of liquid … | Apr 10, 2023 | |
| HTML | 5 | Pipeline to pull microbial reads from WGS data and perform metagenomic analysis | May 08, 2023 | |
| HTML | 3 | Six paired tumor-normal WGBS samples from Ziller et al. (2013) PMID: 23925113. Only chr22. | Apr 12, 2021 | |
| Python | 8 | Simulates somatic mutations, and calls statistically significant oncogenes and tumor suppressor genes based on a … | Sep 17, 2021 | |
| wdl | 6 | Workflows for data pre-processing and initial calling of somatic SNP, Indel, and copy number variants … | Jul 19, 2022 | |
| Julia | 20 | Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data | Feb 08, 2023 | |
| R | 7 | Somatic Mutation Calling Using Both DNA and RNAseq Data | Sep 07, 2021 | |
| Shell | 6 | Set of commandline tools for analysis of tumor variants without a matching normal. Method described … | Dec 09, 2021 | |
| Python | 70 | Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics | Apr 09, 2023 | |
| wdl | 2 | A Cromwell workflow to call and filter variants from sequencing data. | Mar 28, 2022 | |
| PureScript | 3 | Conversions of arbitrary data types to and from Records or Variants | Apr 24, 2023 | |
| Python | 6 | Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data | Jun 30, 2022 | |
| Python | 9 | Measure how our data deviates from normal distribution | Aug 04, 2022 | |
| JavaScript | 13 | Detect content-type from Buffer data. | Jun 17, 2021 | |
| C++ | 30 | Detect and visualize microsatellite instability(MSI) from NGS data | Apr 23, 2023 | |
| C++ | 6 | Clustering tumor cells based on SNVs from single-cell sequencing data | Apr 02, 2023 | |
| Perl | 7 | Software for calling variants from next-generation sequence data. | Oct 06, 2021 | |
| Java | 6 | classification of higher-order structural variants from breakpoint data | May 01, 2023 | |
| wdl | 3 | A cloud-based pipeline to estimate telomere lengths from WGS data using Telseq | Nov 29, 2022 | |
| TypeScript | 30 | A web platform to detect and analyze variants of SARS-CoV-2 | Jul 14, 2022 | |
| Python | 2 | A simple filter to annotate and filter somatic or germline variants based on their observed … | Jun 21, 2022 |