Pinned Repositories
alphafold
Open source code for AlphaFold.
Asymptomatic_Transmission_COVID
betacat
Code for computational RNASeq, scRNASeq and ATACSeq analysis used in the manuscript "Differential regulation of β-catenin-mediated transcription governs identity of murine intestinal epithelial stem cells"
Eosinophils_scRNASeq
Galeano-Nino-Bullman-Intratumoral-Microbiota_2022
Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022
INSaFLU
INSaFLU (“INSide the FLU”) is an influenza-oriented bioinformatics free web-based suite
iqtree2
NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood http://www.iqtree.org
lasso_positions_sampling
snipit
snipit: summarise snps relative to your reference sequence
HiDaisyYu's Repositories
HiDaisyYu/alphafold
Open source code for AlphaFold.
HiDaisyYu/Eosinophils_scRNASeq
HiDaisyYu/Galeano-Nino-Bullman-Intratumoral-Microbiota_2022
Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022
HiDaisyYu/INSaFLU
INSaFLU (“INSide the FLU”) is an influenza-oriented bioinformatics free web-based suite
HiDaisyYu/iqtree2
NEW location of IQ-TREE software for efficient phylogenomic software by maximum likelihood http://www.iqtree.org
HiDaisyYu/snipit
snipit: summarise snps relative to your reference sequence
HiDaisyYu/Asymptomatic_Transmission_COVID
HiDaisyYu/BrainIronWES
https://www.nature.com/articles/s41467-024-49702-2#code-availability
HiDaisyYu/CC_multiomics
https://www.nature.com/articles/s41467-024-53830-0
HiDaisyYu/celltalker
Inference of cell-cell communication from single-cell RNAseq data
HiDaisyYu/clingen-fvg
Scripts used in bioinformatics analysis for the Clingen-FVG project
HiDaisyYu/convergent_RBD_evolution
HiDaisyYu/degs-repo
HiDaisyYu/DNA-Binding-Protien-Prediction
this project mainly aims to predict the DNA binding proteins from the given fasta format then it will connect to the UniProt database and print its functions
HiDaisyYu/EGEA
Every Gene Ever Annotated in published GWAS
HiDaisyYu/GEOquery
The bridge between the NCBI Gene Expression Omnibus and Bioconductor
HiDaisyYu/Hyeon_et_al_PDAC_Nature_Cancer
HiDaisyYu/infercnv
Inferring CNV from Single-Cell RNA-Seq
HiDaisyYu/Kedmi-CITEseq
Code for the Kedmi et al paper
HiDaisyYu/maftools
Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.
HiDaisyYu/mutation_profile
Identify the sequence context flanking SNPs of interest and screen for potential profiles/signatures of interest
HiDaisyYu/PhylogicNDT
HiDaisyYu/ReporTree
A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
HiDaisyYu/SARS-CoV-2_convergent_mut_identification
HiDaisyYu/SCENIC
SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
HiDaisyYu/scRNA_seq-analysis
scRNA analysis of public dataset on bladder cancer
HiDaisyYu/seurat
R toolkit for single cell genomics
HiDaisyYu/somaticseq
An ensemble approach to accurately detect somatic mutations using SomaticSeq
HiDaisyYu/TAGPPI
HiDaisyYu/viral-mutation
Language modeling of viral evolution