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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…
mills-lab / Scoval
Forked from verne91/Scoval_pipelineCommand line and supplements for the project
Adaptation of Ginkgo (https://www.nature.com/articles/nmeth.3578) for CNV calling
A mosaic detecting software based on phasing and random forest
Deep learning framework for SV calling and genotyping
Black-capped and Carolina chickadees hybridize in the eastern United States, and hybrid chickadees have deficient learning and memory abilities. The goal of this project was to determine if cogniti…
A tool to detect postzygotic single-nucleotide mosaicism from unpaired, trio, or paired samples.
Nextflow pipeline for genome annotation of protein-coding genes
An automated RNA-seq pipeline using Nextflow
A list of alternative splicing analysis resources
rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis
SpliceWiz is an R package for exploring differential alternative splicing events in splice-aware alignment BAM files.
SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read…
CLI tool for flexible and fast adaptive sampling on ONT sequencers
Nanopore long reads sequencing for clinical diagnosis
Construct Complex Table with knitr::kable() + pipe.
A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads
MAGinator - Accurate SNV calling and profiling of MAGs
Exome Copy Number Variation Polisher via Deep Learning
Source code for the paper "The Effect of Kinship in Re-Identification Attacks Against Genomic Data Sharing Beacons"
Subset isotype-only vcf, build tree etc. steps after variant calling and isotype assignment
Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing
SUPPA: Fast quantification of splicing and differential splicing