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DeepMosaic is a deep-learning-based mosaic single nucleotide classification tool without the need of matched control information.
Interpretation of cell states using reference single-cell maps
Codes and notebooks for the Gleesonlab Meningomyelocele de novo mutation project
Collections of library structure and sequence of popular single cell genomic methods
Predict eccDNA based on deep learning models
This repository contains codes and pipelines, as well as data used in the analysis of human inhibitory and excitatory neuronal clonal dynamics and lineage relationships, with cell-type-specific mos…
Malformations of cortical development (MCD) are neurological conditions displaying focal disruption of cortical architecture and disrupted cellular organization that occurs during embryogenesis. Th…
A tool for filtering variants from all2all comparison of multiple clones or single cells
MosaicBase is a comprehensive knowledgebase for postzygotic mosaic variants from noncancer disease-related and healthy human individuals
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities i…
A framework for SEQuencing data analysis PIPElines.
Starting with BAMs and FASTQs, follow GATK 4.0 Best Practices up to generating a joint-genotyped VCF
This repository collects pipelines, codes, and some intermediate results for the study of mosaic SNV/Indels for sperm, blood, saliva samples of a transmission genomic study.
Selection Inference on Short Tandem Repeats (SISTR): A method to measure negative selection at short tandem repeats
Scripts for PASM, TAS/TASeq, and MPAS. We provided perl R versions, python versions, and an extended snakemake version with all additional annotations. The scripts are useful for the calculation of…
This repository collects pipelines, codes, and some intermediate results for adult brain somatic mosaicism study.
This repository collects pipelines, codes, and some intermediate results for the study of mosaic SNV/Indels for sperm, blood, and other samples of a control cohort.
Baking Machine Learning into Great British Bake Off
A tool to detect postzygotic single-nucleotide mosaicism from unpaired, trio, or paired samples.
Master the command line, in one page
A mosaic detecting software based on phasing and random forest