Pinned Repositories
ABE_NonCoding_functional_score
A base editor, function score framework, original code
acr
ATACFlow
An ATAC-seq pipeline wrapped in NextFlow that can be run by Jupyter
Bulk_RNAseq_Course_Base
Global_Search
Code repository for the Coral Global Search project.
GZ_Tcell_work
hexo-theme-Chic
An elegant, powerful, easy-to-read Hexo theme.
phenopy
Phenotype comparison tools using semantic similarity.
rna-seq-star-deseq2
RNA-seq workflow using STAR and DESeq2
scRNAseq_Porcine_Ileum_PBMC
geng-lee's Repositories
geng-lee/Global_Search
Code repository for the Coral Global Search project.
geng-lee/anti-PD1_ESCC
geng-lee/base-editor-design-tool
This tool designs guides for use with the base editor technology.
geng-lee/blog
seqyuan
geng-lee/Breat-Cancer-Screening-Classification-and-evaluation-using-Confusion-Matrix
This project was made for a client on PeoplePerHour. The data involves screening different columns and then plotting out confusion matrices using the Seaborn Library and HeatMaps. The True positives, False positives, True negatives, False negatives are calculated and then used to calculate specificity and sensitivity.
geng-lee/CRISPR_Library_prep
Script(s) and associated files for CRISPR guide RNA generation
geng-lee/DANGER_analysis
Risk-averse on/off-target assessment for CRISPR editing without reference genome.
geng-lee/demucs
Code for the paper Hybrid Spectrogram and Waveform Source Separation
geng-lee/Detachment-Limted-Landscape-Evolution-Model
Well-commented Python code for efficient and accurate solutions of the minimalist landscape evolution model (LEM) in detachment-limited conditions.
geng-lee/DualCRISPR_pooled_screen_snakemake_pipeline
geng-lee/esm-1v-workflow
Workflow and supporting code for evaluating every amino acid human protein substitution using ESM-1v.
geng-lee/freeCodeCamp
freeCodeCamp.org's open-source codebase and curriculum. Learn to code for free.
geng-lee/Genome-scale-pan-cancer-interrogation-of-lncRNA-dependencies-using-CasRx
geng-lee/GOLP_code
geng-lee/jannovar
Annotation of VCF variants with functional impact and from databases (executable+library)
geng-lee/LASER
Long-reads-based Alternative Splicing Estimation and Recognition
geng-lee/p53-prime-editing-sensor
Code for analysis of p53 prime editing sensor screening data
geng-lee/prognosis
geng-lee/protein_analyzer
这个脚本提供了基于蛋白质序列的 CDS序列长度，protein长度，蛋白质分子量，蛋白质等电点，蛋白质脂族指数，蛋白质清水性，蛋白质不稳定指数，蛋白质分子式等所有蛋白质性质的批量计算
geng-lee/pysashimi
Pure python scripts to make sashimi plots
geng-lee/res-downloader
微信视频号、小程序、抖音、快手、小红书、酷狗音乐、qq音乐等网络资源下载!
geng-lee/scDNAm
Single-cell DNA methylation analysis for "Nature of epigenetic aging from a single-cell perspective"
geng-lee/sciCSR
Single-Cell Inference of Class Switch Recombination
geng-lee/sco-lecture
geng-lee/scrna-recom
collected resource for scRNA-seq analysis
geng-lee/sequence_unet
Fully convolutional deep learning variant effect predictor architecture
geng-lee/trackplot
trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets.
geng-lee/training-material
A collection of Galaxy-related training material
geng-lee/video_spider
短视频去水印：抖音,皮皮虾,火山,微视,微博,绿洲,最右,轻视频,快手,全民小视频,巴塞电影,陌陌,Before避风,开眼,Vue Vlog 小咖秀,皮皮搞笑,全民K歌,西瓜视频,逗拍,虎牙,6间房,梨视频,新片场,acfun,美拍...
geng-lee/wgs_variant_analysis_RBM20
Whole genome sequencing analysis to investigate on- and off-target effects of CRISPR base-editor treatment in mice.