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25 search results found

Personal Cancer Genome Reporter (PCGR)

R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.

Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data

Titancna ⭐ 59

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

Classifycnv ⭐ 43

ClassifyCNV: a tool for clinical annotation of copy-number variants

Doabsolute ⭐ 31

📦 Automate Absolute Copy Number Calling using 'ABSOLUTE' package

Copy Number Variation

Witty.er ⭐ 26

What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.

Aceseqworkflow ⭐ 22

Allele-specific copy number estimation with whole genome sequencing

Single-cell copy number calling and event history reconstruction.

VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number variants (CNVs) from targeted next-generation sequencing data. For algorithmic details, see Pugh TJ et al. Genet Med. 2016 Jul;18(7):712-9.

Neural Ensemble Method For Cancer Prediction ⭐ 15

A Snapshot Neural Ensemble Method for Cancer Type Prediction Based on Copy Number Variations

POSTRE: Prediction Of STRuctural variant Effects

Genome Seek ⭐ 12

Clinical Whole Genome Sequencing Pipeline

CNAqc - Copy Number Alteration (CNA) Quality Check package

Map single-cell transcriptomes to copy number evolutionary trees.

nPoRe: n-Polymer Realigner for improved pileup-based variant calling

Prioritizing Copy Number Variants (CNV) using Phenotype and Gene Functional Similarity

CLfinder-OrthNet, a pipeline to encode orthologs from multiple genomes and their evolutionary history into networks (OrthNets) based on co-linearity between them. OrthNets enable detection of all orthologous gene groups that share the same evolutionary history, using a search based on network topology

Copy number estimation of highly duplicated sequences

Workflow for Sequenza, cellularity and ploidy

Copynumberplots ⭐ 6

R package to create plots representing copy number data using karyoploteR

Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ratio calculations

Cnvmetrics ⭐ 5

R Package to compare copy number variant (CNV) results from multiple samples/methods

🎉 CNVetti – robust, efficient, and versatile clinical CNV calling from HTS data

Related Searches

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Sequencing Copy Number Variation (4)

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