Alternatives and similar repositories for PACT

Users that are interested in PACT are comparing it to the libraries listed below

• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆39Updated 3 years ago
• parklab / SCAN2
  SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)
  ☆13Updated 3 weeks ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆35Updated last year
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated last year
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆36Updated last month
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆37Updated last year
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆28Updated 2 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆43Updated 3 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 3 months ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆27Updated last year
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• weng-lab / umitools
  A toolset for handling sequencing data with unique molecular identifiers (UMIs)
  ☆15Updated 7 years ago
• chess-genome / chess
  Comprehensive Human Expressed SequenceS
  ☆17Updated this week
• smangul1 / rop
  The Read Origin Protocol (ROP) is a computational protocol that aims to discover the source of all reads, including those originating fro…
  ☆36Updated last year
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• songlab-cal / scquint
  ☆17Updated last year
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆51Updated 4 months ago
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• kircherlab / cfDNA
  cfDNA analysis workflow
  ☆21Updated 2 years ago
• parklab / MSIprofiler
  Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
  ☆20Updated last year
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆28Updated 3 years ago
• Oshlack / Slinker
  Slinker offers a succinct and complementary method to visualise RNA-Seq data through superTranscripts.
  ☆19Updated 3 years ago
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 6 months ago
• smlmbrt / SimilarityRegression
  Predicting TF sequence-specificity similarity with weighted alignments
  ☆13Updated 5 years ago
• splicebox / MntJULiP
  Comprehensive and scalable differential splicing analyses
  ☆17Updated 4 months ago
• HLee-Six / colon_microbiopsies
  Code and files accompanying article "The landscape of somatic mutation in normal colorectal epithelial cells"
  ☆11Updated 4 years ago