Alternatives and similar repositories for MICMIC:

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

• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• nriddiford / cnvPlotteR
  Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec
  ☆13Updated 4 years ago
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 3 months ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated 5 months ago
• jw156605 / SingleSplice
  Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: h…
  ☆21Updated 8 years ago
• KChen-lab / Texomer
  Texomer: Integrating Analysis of Cancer Genome and Transcriptome Sequencing Data
  ☆20Updated 4 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated last month
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• ChrisMaherLab / INTEGRATE-Neo
  ☆19Updated 7 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆39Updated last year
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆18Updated last month
• gersteinlab / FunSeq2
  A flexible framework to annotate and prioritize cancer somatic mutations.
  ☆8Updated 8 years ago
• gcyuan / diHMM
  ☆14Updated last year
• parklab / MSIprofiler
  Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
  ☆20Updated last year
• gersteinlab / siglasso
  Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood
  ☆10Updated 2 years ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated 9 months ago
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆17Updated 5 years ago
• ChrisMaherLab / INTEGRATE-Vis
  ☆15Updated last year
• researchapps / polysolver
  Singularity port of HLA typing based on an input exome BAM file and is currently infers infers alleles for the three major MHC class I (…
  ☆13Updated 8 years ago
• wupengomics / scBS-map
  Single-cell Bisulfite Sequencing Data Mapping
  ☆12Updated 3 years ago
• xiaofengsong / CircAST
  CircAST is a computational tool for circular RNA full-length assembly and quantification using RNA-Seq data.
  ☆9Updated 3 years ago
• kundajelab / ataqc
  ☆16Updated 6 years ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆18Updated 2 months ago
• nghiavtr / FuSeq_WES
  ☆11Updated 2 years ago
• henssenlab / TreeShapedRearrangements
  Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)
  ☆15Updated 4 years ago
• KhiabanianLab / All-FIT
  All-FIT - Allele-Frequency-based Imputation of Tumor Purity
  ☆17Updated 5 years ago