Alternatives and similar repositories for sequenza

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

• flemingtonlab / SpliceTools
  ☆17Updated last year
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• bioinform / ecTMB
  ☆18Updated 4 years ago
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 6 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 11 months ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 7 years ago
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆35Updated 3 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• Xinglab / rMATS-long
  ☆34Updated last month
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• amf71 / ECLIPSE
  ☆11Updated 2 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆42Updated last year
• alexchwong / SpliceWiz
  SpliceWiz is an R package for exploring differential alternative splicing events in splice-aware alignment BAM files.
  ☆21Updated 2 weeks ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆20Updated last week
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆37Updated last year
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆18Updated 5 years ago
• Personalis-DASH / DASH
  ☆12Updated 2 years ago
• wwylab / MuSE
  Somatic point mutation caller
  ☆32Updated 7 months ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated 2 years ago
• roland-rad-lab / MoCaSeq
  Analysis pipelines for cancer genome sequencing in mice.
  ☆21Updated last year
• AmpliconSuite / AmpliconReconstructorOM
  Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data
  ☆19Updated 2 years ago
• parklab / MSIprofiler
  Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
  ☆20Updated last year
• mhalushka / miRge
  miRge - microRNA alignment software for small RNA-seq data, now at v2.0
  ☆27Updated 3 years ago
• battle-lab / twn_tsn
  Transcriptome-wide network
  ☆16Updated 6 years ago
• a2iEditing / deNovo-Detect
  ☆13Updated 3 years ago
• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆41Updated 3 years ago
• chess-genome / chess
  Comprehensive Human Expressed SequenceS
  ☆18Updated 5 months ago
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆29Updated 4 years ago