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adult_brain_somatic_mosaicism

This repository collects pipelines, codes, and some intermediate results for adult brain somatic mosaicism study.

deepmosaic

DeepMosaic is a deep-learning-based mosaic single nucleotide classification tool without the need of matched control information.

eclip

elements-of-style-workflow-creation-maintenance

gatk-docs

Documentation archive for GATK tools and workflows

human_inhibitory_neurons

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 mosaic variant barcoding analysis (cMVBA).

mcd_mosaic

Malformations of cortical development (MCD) are neurological conditions displaying focal disruption of cortical architecture and disrupted cellular organization that occurs during embryogenesis. This repository contains the pipelines for data processing, codes for data analysis and plotting for the large-scale MCD data analysis.

mosaicbase

MosaicBase is a comprehensive knowledgebase for postzygotic mosaic variants from noncancer disease-related and healthy human individuals

mosaicforecast

A mosaic detecting software based on phasing and random forest

mosaichunter

A tool to detect postzygotic single-nucleotide mosaicism from unpaired, trio, or paired samples.

pasm

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 variant allelic fractions for the validation and quantification of mosaic mutations.

primer3

Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).

scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

sperm_control_cohort_mosaicism

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.

sperm_transmission_mosaicism

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.