Pinned Repositories
U-FISH
Deep learning based spot detection for FISH images.
atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
clusterProfiler
:bar_chart: A universal enrichment tool for interpreting omics data
diff_tad_type
Analysis the type of diff_tad which from HicExplorer tools HicDifferentialTAD
MGEscore
CellType Definition by Marker Genes Expression
MicroimageAnalysis
measure fluorescence intensities of Hoechst and CENP-F in the nuclei
SpatiaInSituPlots
Spatial InSitu plot including gene expression and cell type
SpatialImmunoCircle
Computing spatial variations around specific cell clusters in the immune microenvironment
Spatialspots
This document explains how to use three functions to calculate kernel density estimation (KDE), Moran's I statistic, Correlation, Wasserstein distance.
wikk-chy's Repositories
wikk-chy/Spatialspots
This document explains how to use three functions to calculate kernel density estimation (KDE), Moran's I statistic, Correlation, Wasserstein distance.
wikk-chy/MGEscore
CellType Definition by Marker Genes Expression
wikk-chy/SpatiaInSituPlots
Spatial InSitu plot including gene expression and cell type
wikk-chy/SpatialImmunoCircle
Computing spatial variations around specific cell clusters in the immune microenvironment
wikk-chy/diff_tad_type
Analysis the type of diff_tad which from HicExplorer tools HicDifferentialTAD
wikk-chy/atacseq
ATAC-seq peak-calling, QC and differential analysis pipeline
wikk-chy/chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
wikk-chy/clusterProfiler
:bar_chart: A universal enrichment tool for interpreting omics data
wikk-chy/CRDscore
wikk-chy/dcHiC
dcHiC: Differential compartment analysis for Hi-C datasets
wikk-chy/deepBlink
Threshold independent detection and localization of diffraction-limited spots.
wikk-chy/detectron2
Detectron2 is a platform for object detection, segmentation and other visual recognition tasks.
wikk-chy/MicroimageAnalysis
measure fluorescence intensities of Hoechst and CENP-F in the nuclei
wikk-chy/eg-react
WashU Epigenome Browser
wikk-chy/fanc
FAN-C: Framework for the ANalysis of C-like data
wikk-chy/ImJoy
ImJoy: Deep Learning Made Easy!
wikk-chy/juicer
A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
wikk-chy/Mask2Former
Code release for "Masked-attention Mask Transformer for Universal Image Segmentation"
wikk-chy/MMseqs2
MMseqs2: ultra fast and sensitive search and clustering suite
wikk-chy/OneFormer
[Preprint] OneFormer: One Transformer to Rule Universal Image Segmentation, 2022
wikk-chy/openai-translator
基于 ChatGPT API 的划词翻译浏览器插件和跨平台桌面端应用 - Browser extension and cross-platform desktop application for translation based on ChatGPT API.
wikk-chy/Pytorch-UNet
PyTorch implementation of the U-Net for image semantic segmentation with high quality images
wikk-chy/rnaseq
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
wikk-chy/RS-FISH
wikk-chy/scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
wikk-chy/sim-fish
Toolbox to simulate smFISH images.
wikk-chy/Swin-Unet
The codes for the work "Swin-Unet: Unet-like Pure Transformer for Medical Image Segmentation"
wikk-chy/tackPlotR
A R package to visualize bigwigs.
wikk-chy/transit
Repository for the TRANSIT and TPP tools developed by the Ioerger Lab
wikk-chy/U-FISH
Deep learning based spot detection for FISH images.