morrislab / pairtreeLinks
Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneity. Pairtree focuses on scaling to many more cancer samples and cancer cell subpopulations than other algorithms, and on producing concise and informative interactive characterizations of posterior uncertainty.
☆42Updated last year
Alternatives and similar repositories for pairtree
Users that are interested in pairtree are comparing it to the libraries listed below
Sorting:
- A comprehensive toolkit for mutational signature analysis☆41Updated last year
- DRAGEN Tumor/Normal workflow post-processing☆25Updated 2 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Differential ATAC-seq toolkit☆27Updated 2 years ago
- deepStats: a stastitical toolbox for deeptools and genomic signals☆35Updated 4 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆31Updated 9 months ago
- DriverPower☆26Updated 11 months ago
- ☆23Updated 10 months ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆24Updated 3 months ago
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆31Updated 7 years ago
- OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data☆54Updated 2 months ago
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆31Updated last year
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆34Updated 3 years ago
- interactive plots for differential expression analysis☆34Updated 6 months ago
- Sashimi plots for RNA-seq data using detected transcripts☆29Updated 9 months ago
- Identify cell barcodes from single-cell genomics sequencing experiments☆43Updated 4 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Updated 2 years ago
- Flexible Bayesian inference of mutational signatures☆38Updated 2 years ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- RNA-seq workflow: differential transcript usage☆23Updated 2 years ago
- Workflow for Sequenza, cellularity and ploidy☆25Updated 4 months ago
- Codes and Data for FFPEsig manuscript☆17Updated last year
- An R package for predicting HR deficiency from mutation contexts☆30Updated 10 months ago
- Assembly of RNA reads to determine the effect of a cancer mutation on protein sequence☆25Updated last year
- ☆34Updated last month
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Updated 3 years ago
- ☆33Updated 3 years ago
- Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow☆29Updated last year
- simplified cellranger for long-read data☆19Updated 4 months ago
- Differential expression and allelic analysis, nonparametric statistics☆30Updated last year