eesiribloom

eesiribloom's Stars

• zhixingfeng/iGDA

  Detect and phase minor SNVs from long-read sequencing data

  Language:C++14

• pcingola/SnpEff

  Language:Java24778

• bcgsc/straglr

  Tandem repeat expansion detection or genotyping from long-read alignments

  Language:Python609

• google/deepsomatic

  DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.

  13116

• fitzgerald-lab/ecAssemble

  A tool to generate long read assemblies of extra-chromosomal DNA

  Language:Python11

• kevingroup/COMSV

  COMSV (Cancer Optical Mapping based Structural Variation detection) is a pipeline for SV detection based on nanochannel optical mapping data.

  Language:C++21

• cortes-ciriano-lab/ReConPlot

  Language:HTML212

• treangenlab/methphaser

  MethPhaser: methylation-based haplotype phasing of human genomes

  Language:Python42

• odelaneau/shapeit5

  Segmented HAPlotype Estimation and Imputation Tool

  Language:C++649

• dwinter/pafr

  Read, manipulate and visualize 'Pairwise mApping Format' data in R

  Language:R659

• bcgsc/mavis

  Merging, Annotation, Validation, and Illustration of Structural variants

  Language:Python7213

• WGLab/ContextSV

  An alignment-based, generalized structural variant caller for long-read sequencing/mapping data

  Language:C++2

• KolmogorovLab/minda

  Language:Python132

• KolmogorovLab/Wakhan

  Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data

  Language:Python18

• walaj/VariantBam

  Filtering and profiling of next-generational sequencing data using region-specific rules

  Language:Makefile7410

• mbhall88/rasusa

  Randomly subsample sequencing reads or alignments

  Language:Rust20517

• HKU-BAL/ClairS-TO

  ClairS-TO - a deep-learning method for tumor-only somatic variant calling

  Language:Python443

• twolinin/longphase

  Language:C999

• 1kg-ont-vienna/sv-analysis

  SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel

  Language:Python23

• AmpliconSuite/CoRAL

  Reconstruction of focal amplifications with long reads

  Language:Python103

• freeseek/score

  Tools to work with GWAS-VCF summary statistics files

  Language:C997

• xjtu-omics/SVision

  Detecting genome structural variants with deep learning in single molecule sequencing

  Language:Python9710

• yekaizhou/duet

  SNP-Assisted SV Calling and Phasing Using ONT

  Language:Python232

• ccagc/QDNAseq

  QDNAseq package for Bioconductor

  Language:R4527

• cortes-ciriano-lab/savana

  Somatic structural variant caller for long-read data

  Language:Python432

• KolmogorovLab/Severus

  A tool for somatic structural variant calling using long reads

  Language:Python1024

• HKU-BAL/ClairS

  ClairS - a deep-learning method for long-read somatic small variant calling

  Language:Python687

• raphael-group/hatchet

  HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jointly across multiple tumor samples from the same patient, and that leverages the relationships between clones in these samples.

  Language:Roff6631

• kcleal/dysgu

  Toolkit for calling structural variants using short or long reads

  Language:Cython9211

• WGLab/NanoCaller

  Variant calling tool for long-read sequencing data

  Language:Python988