A tool for simulating CNVs for WES data. It simulates rearranged genome(s), short reads (fastq) and BAM file(s) automatically in one single command.
☆17Feb 21, 2020Updated 6 years ago
Alternatives and similar repositories for SECNVs
Users that are interested in SECNVs are comparing it to the libraries listed below
Sorting:
- cnv-seq with custom bugfix☆10Mar 23, 2013Updated 12 years ago
- A set of Pyro models and functions to infer CNA from scRNA-seq data☆11Aug 14, 2023Updated 2 years ago
- Map single-cell transcriptomes to copy number evolutionary trees.☆14Aug 18, 2024Updated last year
- Polyidus provides a framework to catch chimeric DNA sequences with a tale of python☆10Jul 14, 2023Updated 2 years ago
- Copy Number Variations (CNV) Simulator☆11Jul 30, 2018Updated 7 years ago
- Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data☆91Sep 16, 2025Updated 5 months ago
- ☆17Jul 13, 2021Updated 4 years ago
- Snakemake workflow for neoantigen prediction☆15Sep 7, 2023Updated 2 years ago
- Data Structures for Bioinformatics - LM Bioinformatics - University of Rome Tor Vergata☆11Dec 11, 2025Updated 2 months ago
- ☆13Dec 7, 2021Updated 4 years ago
- ☆18Mar 14, 2022Updated 3 years ago
- A standalone end-to-end data analysis pipeline for Duplex Sequencing☆21Oct 25, 2023Updated 2 years ago
- A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, …☆88Updated this week
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆22May 21, 2024Updated last year
- TransVar - multiway annotator for precision medicine☆126Apr 19, 2023Updated 2 years ago
- Evolution simulator with extinct lineages☆25Apr 3, 2025Updated 10 months ago
- Nextflow pipeline for Mutect2 somatic variant calling best practices☆23Jun 14, 2024Updated last year
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆29Aug 10, 2021Updated 4 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆247Oct 18, 2024Updated last year
- Single-cell copy number calling and event history reconstruction.☆28Dec 21, 2024Updated last year
- Microsatellite instability (MSI) detection for tumor only data.☆113Apr 23, 2024Updated last year
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆72Jun 26, 2023Updated 2 years ago
- Improving Personalized Prediction of Cancer Prognoses with Clonal Evolution Models☆22Sep 23, 2019Updated 6 years ago
- Fork of the Polysolver project☆33Nov 21, 2019Updated 6 years ago
- For those who have no previous coding background, and just starting to venture into Pyhton for analytics and some machine learning, this …☆13Oct 21, 2022Updated 3 years ago
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆75Sep 4, 2024Updated last year
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆70Aug 22, 2021Updated 4 years ago
- CN-Learn☆30Jan 24, 2020Updated 6 years ago
- Copy number calling and variant classification using targeted short read sequencing☆145Feb 19, 2026Updated last week
- ☆33Jan 11, 2025Updated last year
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Feb 19, 2026Updated last week
- ☆14Mar 22, 2018Updated 7 years ago
- Introduction to Python3☆11Oct 26, 2020Updated 5 years ago
- Evaluate the performances (precision and recall) of structural variation (SV) callers☆36Sep 8, 2025Updated 5 months ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆37Sep 16, 2025Updated 5 months ago
- HIVID2 is a tool for detecting virus integration events in the host genome.☆12Oct 1, 2023Updated 2 years ago
- Representation of Module Activity☆10May 31, 2017Updated 8 years ago
- Msuite2: integrated DNA methylation data analysis toolkit with enhanced performance☆10Jan 21, 2025Updated last year
- Clonal structure identification through penalizing pairwise differences☆11Nov 25, 2025Updated 3 months ago