Pinned Repositories
Arena_R_Code
Cho_Xi_Seqscope
Seqscope codes
COPILOT
Single cell RNA-seq preprocessing tool for gene-by-cell matrices of UMI counts. It is recommended to use the raw spliced and unpliced counts matrices produced by scKB pipeline as the input of copilot.
DipAsm
doubletD
DoubletFinder
R package for detecting doublets in single-cell RNA sequencing data
Filtlong
quality filtering tool for long reads
fineRADstructure
A package for population structure inference from RAD-seq data
finishingTool
finshingTool
Smediterranea's Repositories
Smediterranea/instaGRAAL
Large genome reassembly based on Hi-C data, continuation of GRAAL
Smediterranea/Hapi
Chromosome-length haplotype inference using genotype data of single gamete cells
Smediterranea/HiC-Box
GUI-based pipeline for Hi-C data processing and visualization
Smediterranea/hapcut2
Performs haplotype assembly from genomic DNA sequence reads for a single individual using a maximum-likelihood based approach. Performs well on diverse NGS technologies, including long read data and Hi-C.
Smediterranea/finishingTool
finshingTool
Smediterranea/RepeatScout
The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at http://bix.ucsd.edu/repeatscout/