Pinned Repositories
awesome-cancer-variant-databases
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
cfDNApipe
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
Diablo_ACMG
Tool for automated classification of genetic variants according to ACMG criteria.
grenepipe
A flexible, scalable, and reproducible pipeline to automate variant calling from sequence reads.
hyperparathyroid_analysis_20221102
Analysis documentation for research into the variants associated with hyperparathyroidism. Illumina, germline, human, whole exome sequence (WES) data from the CCDHB.
IMPACT-Pipeline
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
MutScan
Detect and visualize target mutations by scanning FastQ files directly
nRex
nRex: Germline and somatic single-nucleotide, short indel and structural variant calling
open-cravat
A modular annotation tool for genomic variants
primerDesign
A tool to design highly specific PCR primers for the validation of genomic alterations including structural variants
LeafLiu's Repositories
LeafLiu/awesome-cancer-variant-databases
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
LeafLiu/cfDNApipe
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
LeafLiu/Diablo_ACMG
Tool for automated classification of genetic variants according to ACMG criteria.
LeafLiu/grenepipe
A flexible, scalable, and reproducible pipeline to automate variant calling from sequence reads.
LeafLiu/hyperparathyroid_analysis_20221102
Analysis documentation for research into the variants associated with hyperparathyroidism. Illumina, germline, human, whole exome sequence (WES) data from the CCDHB.
LeafLiu/IMPACT-Pipeline
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
LeafLiu/MutScan
Detect and visualize target mutations by scanning FastQ files directly
LeafLiu/nRex
nRex: Germline and somatic single-nucleotide, short indel and structural variant calling
LeafLiu/open-cravat
A modular annotation tool for genomic variants
LeafLiu/primerDesign
A tool to design highly specific PCR primers for the validation of genomic alterations including structural variants
LeafLiu/single-cell-tutorial
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
LeafLiu/TBtools
GUI/CommandLine Tool Box for biologistists to utilize NGS data.
LeafLiu/WisecondorX
WisecondorX — An evolved WISECONDOR
LeafLiu/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
LeafLiu/WEScall
WEScall: WES genotype calling pipeline