shiwanyin

shiwanyin's Stars

• fengdu78/lihang-code

  《统计学习方法》的代码实现

  Language:Jupyter Notebook19.1k536496.3k

• ljpzzz/machinelearning

  My blogs and code for machine learning. http://cnblogs.com/pinard

  Language:Jupyter Notebook8.4k302253.7k

• google/deepvariant

  DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

  Language:Python3.3k155856731

• kblin/ncbi-genome-download

  Scripts to download genomes from the NCBI FTP servers

  Language:Python97035145173

• ixinzhi/tianya

  :books: 天涯帖子备份

  556130257

• milaboratory/mixcr

  MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.

  Language:Kotlin3383198779

• PapenfussLab/gridss

  GRIDSS: the Genomic Rearrangement IDentification Software Suite

  Language:Java2612266071

• brentp/smoove

  structural variant calling and genotyping with existing tools, but, smoothly.

  Language:Go2391124121

• counsyl/hgvs

  HGVS variant name parsing and generation

  Language:Python171354280

• OpenGene/MutScan

  Detect and visualize target mutations by scanning FastQ files directly

  Language:C149221538

• zwdzwd/transvar

  TransVar - multiway annotator for precision medicine

  Language:Python11985133

• tianyakk/tianya_kkndme

  天涯kk大神三部曲

  991228

• nh13/DWGSIM

  Whole Genome Simulator for Next-Generation Sequencing

  Language:C9575636

• common-workflow-library/bio-cwl-tools

  CWL CommandLineTool descriptions for biology/life-sciences related applications

  Language:Common Workflow Language76182937

• immunogenomics/HLA_analyses_tutorial

  A thorough tutorial on HLA imputation and association, accompanying our manuscript "Tutorial: A statistical genetics guide to identifying HLA alleles driving complex disease"

  Language:Jupyter Notebook6413513

• mourisl/T1K

  T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.

  Language:C548358

• stat-lab/EvalSVcallers

  Evaluate the performances (precision and recall) of structural variation (SV) callers

  Language:Perl3422113

• SACGF/cdot

  Transcript versions for HGVS libraries

  Language:Python292835

• SACGF/variantgrid

  VariantGrid public repo

  Language:Python2341.1k2

• HTGenomeAnalysisUnit/SCE-VCF

  Sample Contamination Estimate from VCF

  Language:Nim19130

• nf-cmgg/structural

  A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads

  Language:Nextflow195502

• LeiHaoa/DeepFilter

  rabbitvar filter

  Language:Python8211

• mattmattmattmatt/DeepSNVMiner

  A sequence analysis tool to detect emergent, rare mutations in sub-sets of cell populations

  Language:Perl8175

• Duke-GCB/GCB-Dockerfiles

  Docker images for bioinformatic workflows that are built on Docker Hub under the DukeGCB organization.

  Language:Python75214

• ShihChingYu/TransAT

  TransAT is a package within the R programming language for converting RefSeq ID to Ensembl transcripts and mapping the genomic position, followed by providing variant allele frequencies and gene annotations.

  Language:R4112

• erickcastelli/hla-mapper

  hla-mapper was designed to minimize alignment bias for HLA genes and the hg38 reference genome.

  Language:C++2110

• erickcastelli/KIR_genotyping

  Tutorial for genotyping, haplotyping, copy number estimation, and allele calls for KIR genes

  Language:Perl2101

• bioslimcontainers/bwa-samtools

  Docker image with bwa & samtools

  Language:Dockerfile1200

• Lymphoma-IDIPHISA/Histological-Transformation-Prognostic-Index-HT-PI

  Prognostic index for histological transformation of FL patients.

  Language:R1101

• Roche-CSI/kapa_nhl

  KAPA NHL

  Language:R1002