huishenlab / biscuit

Related projects: ⓘ

• ZhouQiangwei / MethHaplo
  allele specific DNA methylation haplotype region
  ☆13Updated 11 months ago
• 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.
  ☆42Updated 2 months ago
• ben-laufer / CpG_Me
  A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to …
  ☆20Updated 2 years ago
• wwylab / MuSE
  Somatic point mutation caller
  ☆22Updated this week
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆22Updated 3 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆30Updated 2 years ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 3 months ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆28Updated last year
• hoffmangroup / umap
  ☆23Updated 5 months ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆37Updated last year
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆15Updated 8 months ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆47Updated last month
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆38Updated 3 weeks ago
• cancer-genomics / reproduce_lucas_wflow
  ☆22Updated 6 months ago
• sartorlab / methylSig
  R package for DNA methylation analysis
  ☆17Updated last month
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 2 years ago
• kundajelab / ataqc
  ☆17Updated 5 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated last year
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆30Updated last year
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆33Updated last month
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆45Updated last month
• zhouzilu / iCNV
  Integrated copy number variation detection toolset
  ☆25Updated 4 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆40Updated 2 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆28Updated last year
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆12Updated last month
• LappalainenLab / lorals
  ☆31Updated last year
• sfu-compbio / sinvict
  SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
  ☆27Updated 3 years ago