ctsa

ctsa's Stars

• EichlerLab/pav

  Phased assembly variant caller

  Language:Python998

• usnistgov/defrabb

  Genome In A Bottle Development Framework for Assembly Based Benchmarks

  Language:Python4

• broadinstitute/T2T-ACE

  Accurate CNV Evaluation Using Telomere-to-Telomere Assemblies

  Language:Jupyter Notebook4

• kcleal/superintervals

  Fast interval intersection library

  Language:C++29

• PacificBiosciences/vclust

  A method to locate variation clusters

  Language:Rust5

• tsakim/poibin

  Poisson Binomial Probability Distribution for Python

  Language:Python8134

• PacificBiosciences/waffle_con

  DWFA consensus algorithm for pb-StarPhase

  Language:Rust2

• chhylp123/hifiasm

  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

  Language:C++55188

• statrs-dev/statrs

  Statistical computation library for Rust

  Language:Rust60084

• alignoth/alignoth

  Creating alignment plots from bam files

  Language:Rust561

• mktle/colorSV

  somatic SV calling on matched tumor-normal co-assembly graphs

  Language:C++181

• lorewar2/lcskgraph

  Extending lcsk++ to graph to support semiglobal poa

  Language:Rust3

• jackh726/bigtools

  A high-performance BigWig and BigBed library in Rust

  Language:Rust717

• genomic-medicine-sweden/nallo

  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.

  Language:Nextflow194

• RagnarGrootKoerkamp/astar-pairwise-aligner

  A pairwise sequence aligner written in Rust

  Language:Rust11711

• PacificBiosciences/HiFi-SVTopo

  Complex structural variant visualization for HiFi sequencing data

  Language:Python261

• akavel/up

  Ultimate Plumber is a tool for writing Linux pipes with instant live preview

  Language:Go8.4k129

• ACEnglish/truvari

  Structural variant toolkit for VCFs

  Language:Python32448

• PacificBiosciences/sawfish

  Structural variant discovery and genotyping from mapped PacBio HiFi data

  Language:Rust321

• PacificBiosciences/trgt-denovo

  De novo tandem repeat calling from PacBio HiFi data

  Language:Jupyter Notebook151

• google/deeppolisher

  Transformer-based sequence correction method for genome assembly polishing

  Language:Jupyter Notebook393

• PacificBiosciences/hifihla

  An HLA star-calling tool for PacBio HiFi data types

  202

• marbl/HG002

  A complete diploid human genome

  1035

• KolmogorovLab/Severus

  A tool for somatic structural variant calling using long reads

  Language:Python1055

• 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.

  14515

• PacificBiosciences/pb-StarPhase

  A phase-aware pharmacogenomic diplotyper for PacBio datasets

  Language:Rust101

• dpryan79/libBigWig

  A C library for handling bigWig files

  Language:C7525

• TimD1/vcfdist

  vcfdist: Accurately benchmarking phased variant calls

  Language:C++787

• noamteyssier/gia

  gia: Genomic Interval Arithmetic

  Language:Rust512

• Sentieon/hap-eval

  A VCF comparison engine for structual variant benchmarking

  Language:Python193