yurasong

A bioinformatician in Cédric Blanpain lab. Enjoying digging into the datasets derived from all biological samples. Language: KR-EN-CN-FR-IT-NL

Université libre de BruxellesBrussels, Belgium

Pinned Repositories

10x-scATAC-2019
Code Repository for Satpathy Granja et al 2019
Language:R00
atac-seq-pipeline
ENCODE ATAC-seq pipeline
Language:Python00
awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
00
Bioc2020workshop
Language:Dockerfile0 0 00
BiocNYC
Materials presented at the BiocNYC meet-up
Language:HTML00
bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Language:C00
CellphoneDB
CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
Language:Python00
ImcSegmentationPipeline
A pixelclassification based multiplexed image segmentation pipeline
Language:Jupyter Notebook1 0 00
ngsplot
Quick mining and visualization of NGS data by integrating genomic databases
Language:R1 0 00
project-template
Template for project directory structure.
1 0 00

yurasong's Repositories

yurasong/ImcSegmentationPipeline
A pixelclassification based multiplexed image segmentation pipeline
Language:Jupyter Notebook1 0 00
yurasong/ngsplot
Quick mining and visualization of NGS data by integrating genomic databases
Language:R1 0 00
yurasong/project-template
Template for project directory structure.
1 0 00
yurasong/10x-scATAC-2019
Code Repository for Satpathy Granja et al 2019
Language:R00
yurasong/atac-seq-pipeline
ENCODE ATAC-seq pipeline
Language:Python00
yurasong/awesome-single-cell
List of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
00
yurasong/Bioc2020workshop
Language:Dockerfile0 0 00
yurasong/BiocNYC
Materials presented at the BiocNYC meet-up
Language:HTML00
yurasong/bwa
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Language:C00
yurasong/CellphoneDB
CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
Language:Python00
yurasong/chromVARmotifs
R package with motifs for use with chromVAR
Language:R
yurasong/deepTools
Tools to process and analyze deep sequencing data.
yurasong/lollipops
Lollipop-style mutation diagrams for annotating genetic variations.
Language:Go1
yurasong/MACS
MACS -- Model-based Analysis of ChIP-Seq
Language:Python
yurasong/MAGIC
MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.
Language:Jupyter Notebook
yurasong/mdlabbook
mdlabbook is a markdown-format lab notebook
yurasong/midnight
Midnight is a Jekyll theme for GitHub Pages
yurasong/NGS_Course
Course on analysis of NGS data (RNA-Seq. and ATAC-Seq.) using Galaxy
yurasong/nichenetr
NicheNet: predict active ligand-target links between interacting cells
yurasong/posterdown
Use RMarkdown to generate PDF Conference Posters via HTML
yurasong/powsimR
Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially expressed genes. PowsimR is a flexible tool to simulate and evaluate differential expression from bulk and especially single-cell RNA-seq data making it suitable for a priori and posterior power analyses.
yurasong/R-course_2021Summer
Language:HTML
yurasong/R-coursework
R notebook and example data for beginner :)
Language:HTML
yurasong/seqtk
Toolkit for processing sequences in FASTA/Q formats
Language:C
yurasong/seurat
R toolkit for single cell genomics
Language:R
yurasong/Severo.jl
a software package for analysis and exploration of single-cell RNA-seq datasets
yurasong/Thesis_Academic
yurasong/vcf2maf
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
Language:Perl