Pinned Repositories
bamsnap
emsar
EMSAR quantifies transcripts from RNA-seq data (Citation : Lee et al., BMC Bioinformatics 2015, 16:278, http://www.biomedcentral.com/1471-2105/16/278)
HiNT
HiC for copy Number variation and Translocation detection
MosaicForecast
A mosaic detecting software based on phasing and random forest
MuSiCal
A comprehensive toolkit for mutational signature analysis
NGSCheckMate
Software program for checking sample matching for NGS data
nozzle
Nozzle is a report generation toolkit for data analysis pipelines implemented in R.
ShatterSeek
SigMA
Mutational signature analysis for low statistics SNV data
xTea
Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
Park Lab at Harvard Medical School's Repositories
parklab/NGSCheckMate
Software program for checking sample matching for NGS data
parklab/bamsnap
parklab/xTea
Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
parklab/ShatterSeek
parklab/SigMA
Mutational signature analysis for low statistics SNV data
parklab/MosaicForecast
A mosaic detecting software based on phasing and random forest
parklab/HiNT
HiC for copy Number variation and Translocation detection
parklab/MuSiCal
A comprehensive toolkit for mutational signature analysis
parklab/MSIprofiler
Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
parklab/LiRA
parklab/SCAN2
SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)
parklab/Salamander
Salamander is a non-negative matrix factorization framework for signature analysis
parklab/scan-snv
Single cell somatic genotyper
parklab/HiTea
computational tool to identify trasposable element insertions using Hi-C data
parklab/focal-amplification
parklab/SCAN2_PTA_paper_2022
Scripts for replicating the analyses in Luquette et al. 2022
parklab/HiScanner
Scanner output visualization tool
parklab/xTea_paper
Host the scripts, running commands, and results for the xTea paper.
parklab/mutagenesis_tools
Scripts for simulating mutant peptides and reading frames from mutations
parklab/r-scansnv
R package for SCAN-SNV
parklab/code-share
Repository to host shared code for the lab
parklab/SCGenotyper_mini
A lightweight (largely) self-contained genotyper for SNVs in single-cell DNA-seq data.
parklab/kras_project
parklab/luquette-glia-analysis
Scripts for the glia project
parklab/mpnst_surveyor
parklab/r-mutenrich
Analyze distribution of somatic mutations with permutations as a background
parklab/r-scan2
R package supporting the SCAN2 pipeline
parklab/SVA_catalog
Host the SVA reference catalog
parklab/SVA_landscape_project
parklab/ViScanner
Scanner output visualization tool