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.
☆38Updated 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
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Differential ATAC-seq toolkit☆27Updated last year
- DriverPower☆26Updated 7 months ago
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 5 months ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆22Updated 3 months ago
- deepStats: a stastitical toolbox for deeptools and genomic signals☆34Updated 4 years ago
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆29Updated last year
- Flexible Bayesian inference of mutational signatures☆36Updated 2 years ago
- Multi-sample cancer phylogeny reconstruction☆35Updated 7 years ago
- Model-based tumour subclonal deconvolution using population genetics☆33Updated last week
- Allele-Specific Expression by Single-Cell RNA Sequencing☆29Updated 4 years ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- 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…☆45Updated 3 years ago
- ChIP-seq DC and QC Pipeline☆36Updated 4 years ago
- ☆32Updated 9 months ago
- Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow☆27Updated 11 months ago
- A set of tools to annotate VCF files with expression and readcount data☆29Updated 6 months ago
- ☆23Updated 6 months ago
- R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes☆14Updated 5 months ago
- miRge - microRNA alignment software for small RNA-seq data, now at v2.0☆27Updated 3 years ago
- Workflow for Sequenza, cellularity and ploidy☆20Updated 3 weeks ago
- ☆33Updated 3 years ago
- An R package for predicting HR deficiency from mutation contexts☆29Updated 7 months ago
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆41Updated 3 weeks ago
- OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data☆53Updated last month
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆34Updated 3 years ago
- Sashimi plots for RNA-seq data using detected transcripts☆29Updated 5 months ago
- RNA-seq workflow: differential transcript usage☆22Updated 2 years ago