vd4mmind

Deconvolution-for-ST-in-Cardiorenal-Disease

CASSL

A cell-type annotation method for single cell transcriptomics data using semi-supervised learning

AKITA_LCM_RNASeq_Treatment

This study includes 54 mouse kidney samples stratified into 9 groups based on disease, treatment, and genotype explanatory variables. The table below summarizes the experimental design.

ENCODE_chipseq_pipeline

ENCODE ChIP-seq pipeline

MOFA

Multi-Omics Factor Analysis

multiOmicsIntegration

Github Repository for multiOmics Integration project involving genomics, epigenomics and transcriptomics

mutation_analysis_scripts

day to day activity for mutation data

RNASeq

This project consists of various scripts that were used for analysis of RNA-Seq data. The scripts are not customised but basal level which one can use to fit into their suitable experimental design post modifications.

scRNAseq_Benchmark

Bench-marking classification tools for scRNA-seq data

scRNAseq_cell_cluster_labeling

Scripts to run and benchmark scRNA-seq cell cluster labeling methods

vd4mmind/multiOmicsIntegration

Github Repository for multiOmics Integration project involving genomics, epigenomics and transcriptomics

vd4mmind/scRNAseq_Benchmark

Bench-marking classification tools for scRNA-seq data

vd4mmind/scRNAseq_cell_cluster_labeling

Scripts to run and benchmark scRNA-seq cell cluster labeling methods

vd4mmind/singleCellDataSets

This is a repository for all the single cell datasets that I am accuring from public repositories

vd4mmind/SingleCellExperiment

Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.

vd4mmind/awesome-bioinformatics-benchmarks

A curated list of bioinformatics bench-marking papers and resources.

vd4mmind/Single-cell-RNA-sequencing-of-human-kidney

R-code used for single-cell RNA-Seq analysis of kidney data.

vd4mmind/AKITA_LCM_RNASeq_Treatment

This study includes 54 mouse kidney samples stratified into 9 groups based on disease, treatment, and genotype explanatory variables. The table below summarizes the experimental design.

vd4mmind/Artificial-Intelligence-Deep-Learning-Machine-Learning-Tutorials

A comprehensive list of Deep Learning / Artificial Intelligence and Machine Learning tutorials - rapidly expanding into areas of AI/Deep Learning / Machine Vision / NLP and industry specific areas such as Climate / Energy, Automotives, Retail, Pharma, Medicine, Healthcare, Policy, Ethics and more.

vd4mmind/awesome-deep-learning-single-cell-papers

vd4mmind/bioc2020trajectories

Trajectory inference and differential expression over multiple conditions in scRNA-seq

vd4mmind/Colab

Testing the googleColab for some research gigs

vd4mmind/E-MTAB-6141

Data from Lewis, Barnes, Blighe et al., Cell Rep. 2019 Aug 27; 28(9): 2455–2470.e5.

vd4mmind/excelerate-scRNAseq

Single RNA-seq data analysis with R (Finland, May, 2019)

vd4mmind/genomics

Scripts, utilities and programs for genomic bioinformatics.

vd4mmind/hypeR-workshop

Efficient, Scalable, and Reproducible Enrichment Workflows

vd4mmind/mars

Discovering novel cell types across heterogenous single-cell experiments

vd4mmind/PHATE

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.

vd4mmind/plantmetaBolGCMS

code repo for the Plant Science paper published on GC-MS

vd4mmind/R_hacks

Simple commands to make coding in R easier!

vd4mmind/scCellTypeAnnotation

This repository will keep populating paper links and tool names that are currently in pre-print stage or published for Cell Type Identification, Annotation and Labeling.

vd4mmind/scDataviz

scDataviz: single cell dataviz and downstream analyses

vd4mmind/SCMarker

Marker gene selection from scRNA-seq data

vd4mmind/scptest_colab

Testing the SCP pipeline in Google Colab

vd4mmind/scRNA-seq-datasets

Raw data with annotations

vd4mmind/scRNA.seq.datasets

Collection of public scRNA-Seq datasets used by our group

vd4mmind/sgRNA_library

This repository contains the Google Colab notebook for single guide RNA library characterization

vd4mmind/swirl_courses

:mortar_board: A collection of interactive courses for the swirl R package.

vd4mmind/TSCAN

Clone of the Bioconductor repository for the TSCAN package.

vd4mmind/vd4mmind

Config files for my GitHub profile.