Biocview "GenomicVariation"

Accesses MyVariant.info variant query and annotation services

Analysing Illumina HumanMethylation BeadChip Data

Analysis of Copy Number Variation in Single-Cell-Sequencing Data

An integrated analysis package of Gene expression and Copy number alteration

A normalization method for Copy Number Aberration in cancer samples

A suite for analysis of rare genomic variants in whole genome sequencing data

BioThings Client (https://github.com/biothings/BioThingsClient.R)

Chromosome Instability Index

CNV detection tool for targeted NGS panel data

Coordinate Covariation Analysis

Decomposition of individual tumors into mutational signatures by signature refitting

Delineate outstanding genomic zones of differential gene activity

Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients

Dual redundant reference sequencing

Empirical Bayesian approach to mutational signature discovery

Feature-based association and gene-set enrichment for copy number alteration analysis in cancer

Gene set analysis methods for SNP association p-values that lie in genes in given gene sets

Get inversion status in predefined regions

Gimpute: An efficient genetic data processing and imputation pipeline

High Throughput Sequencing Cell Authentication Toolkit

Identification and Assessment of Single Nucleotide Variants through Shifts in Non-Consensus Base Call Frequencies

Identification of candidate genes associated with genetic variation

Infer Copy Number Variation from Single-Cell RNA-Seq Data

Inference of Chromosome-length Haplotypes using Genomic Data of Single Gamete Cells

Inference of Chromosome-Length Haplotypes Using Genomic Data of Single Gamete Cells

In-silico methods for genetic finemapping in inbred mice

Integrative Pathway Analysis with Modern PCA Methodology and Gene Selection

IPD IMGT/HLA and IPD KIR database for Homo sapiens

Microbial Comparative Genomics in R

Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data

Prediction of intronic splicing branchpoints

Preprocessing and Analysis of Deep Mutational Scanning Data

Replicate oriented Visualization of a genomic region

Retrieves Condition-Specific Variants in RNA-Seq Data

R package for RIVER (RNA-Informed Variant Effect on Regulation)

R wrapper for Progenetix

sciCNV

Seamless visualization of complex genomic variations in GMOs and edited cell lines

Semi-Supervised Mixture Model

Somatic Signatures

Standardise summary statistics from GWAS

Subclonal copy number and LOH prediction from whole genome sequencing of tumours

Summarization and expression/phenotype association of CNV ranges

svpluscnv: analysis and visualization of complex structural variation data

Tools for counting and visualising mutations in a target location

Tumor subclonality of expression-based cancer subtypes

TVTB: The VCF Tool Box

Visual comparison of mutational processes in a set of tumors

Visualization of genomic structural variants

Yet Another Package for Signature Analysis

Biocview "GenomicVariation"

R Package Documentation

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