2019surbhi Goto Github PK

apa_atinglab2019

DNA methylation regulates alternative polyadenylation via CTCF and the cohesin complex (2019 paper submission)

bamutil

bladdercancerproject_tinglab

Code related to Ting lab's bladder cancer project

cellphonedb

dendro

Genetic Heterogeneity Profiling by Single Cell RNA Sequencing

documentation

geosketch

Geometry-preserving random sampling

goldmine

Annotate genomic contexts and discover functional element enrichments

gudmap-rbk

Public wiki and information regarding GUDMAP/RBK

mudcookies

We help each other to study single-cell data

murp

model-based downsampling algorithm

polyafilter

Project exploring the effects of internal poly(dT) priming in bulk and single cell RNA sequencing.

repact

samtopolya

A utility to call polyA sites based on genome alignments in SAM format

scapa

This is a package and a shell script for alternative polyadenylation (APA) analysis of 3' tag single-cell RNA-seq data.

scevan

R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.

scpasu

Pipeline to repurpose scRNA-seq data for single cell polyadenylation analysis

scpasu_pipeline

scPASU pipeline updated February 2024. Co-developed by Surbhi Sona and Ninh Le

scrna

scrna_analysis_developing

Ting lab's scRNA analysis of Human ureter

seurat

R toolkit for single cell genomics

sge-integration

Repository for [TITLE] STAR protocol

sierra

Discover differential transcript usage from polyA-captured single cell RNA-seq data

sphetcher

Sketching single-cell transcriptomic heterogeneity

tinglab-dataprocessing

tinglab_ureter_analysis

xfuse

Super-resolved spatial transcriptomics by deep data fusion