LeonSong1995
Ph.D. student. School of life science, Westlake university, Zhejiang university
Westlake UniversityZhejiang, China
Pinned Repositories
AlleleSeq2
ARTISTA
Axolotl Regenerative Telencehpalon Interpretation via Spatiotemporal Transcriptomic Atlas
benchmarking_variant_callers
In this study, we perform systematic comparative analysis of seven widely-used SNV-calling methods, including SAMtools, the GATK Best Practices pipeline, CTAT, FreeBayes, MuTect2, Strelka2 and VarScan2, on both simulated and real single-cell RNA-seq datasets. We evaluate the performances of these tools in different read depths, genomic contexts, functional regions and variant allele frequencies.
GLUE
Graph-linked unified embedding for single-cell multi-omics data integration
gsMap
MeDuSA
MeDuSA is a fine-resolution cellular deconvolution method that leverages scRNA-seq data as a reference to estimate cell-state abundance in bulk RNA-seq data.
MeDuSA_Analysis
MeDuSAJ
QTLEnrich
Assessing enrichment of complex disease or trait associations among QTLs
SAW
LeonSong1995's Repositories
LeonSong1995/MeDuSA
MeDuSA is a fine-resolution cellular deconvolution method that leverages scRNA-seq data as a reference to estimate cell-state abundance in bulk RNA-seq data.
LeonSong1995/gsMap
LeonSong1995/MeDuSA_Analysis
LeonSong1995/MeDuSAJ
LeonSong1995/AlleleSeq2
LeonSong1995/ARTISTA
Axolotl Regenerative Telencehpalon Interpretation via Spatiotemporal Transcriptomic Atlas
LeonSong1995/benchmarking_variant_callers
In this study, we perform systematic comparative analysis of seven widely-used SNV-calling methods, including SAMtools, the GATK Best Practices pipeline, CTAT, FreeBayes, MuTect2, Strelka2 and VarScan2, on both simulated and real single-cell RNA-seq datasets. We evaluate the performances of these tools in different read depths, genomic contexts, functional regions and variant allele frequencies.
LeonSong1995/GLUE
Graph-linked unified embedding for single-cell multi-omics data integration
LeonSong1995/QTLEnrich
Assessing enrichment of complex disease or trait associations among QTLs
LeonSong1995/SAW
LeonSong1995/SpaGCN
SpaGCN: Integrating gene expression, spatial location and histology to identify spatial domains and spatially variable genes by graph convolutional network
LeonSong1995/stereopy
A toolkit of spatial transcriptomic analysis.
LeonSong1995/STitch3D
Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices