Won Cheol Yim's Projects
DRAGEN open-source mapper
Extensive de-novo TE Annotator
Exploratory Data Analysis Project 2
This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.
FASconCAT-G offers a wide range of possibilities to edit and concatenate multiple nucleotide, amino acid, and structure sequence alignment files for phylogenetic and population genetic purposes. The main options include sequence renaming, file format conversion, sequence translation, consensus generation of predefined sequence blocks, and RY coding as well as site exclusions in nucleotide sequences. FASconCAT-G implemented process options can be invoked in any combination and performed during a single process run. FASconCAT-G can also read in and handle different file formats (FASTA, CLUSTAL, and PHYLIP) in a single run.
Automated de novo assembly of whole chloroplast genomes.
A collection of scripts developed to interact with fasta, fastq and sam/bam files.
A fully automated gene annotator from RNA-Seq expression data
:books: Freely available programming books
Genome Annotation Library - A perl toolkit for working with SO compliant genome annotations
GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from a closely related species are available.
Calculate circos format data of GC content and GC skew from genome data.
Tool to scan gene family in species.
GENIE3 (GEne Network Inference with Ensemble of trees) R-package
Analyses pipelines that I use for my work
The Leek group guide to genomics papers
Here are a set of example Relevant Background and Future Goals and Graduate Research Plan Statement statements for the NSF GRFP in Ecology and Evolutionary Biology.
Using Deep Learning to predict gene annotations
A set of pipelines for Hi-C and ChIP-Seq analysis.
HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
“When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
cluster sunyidan home scripts
:microscope: Scientific formulae for the Homebrew package manager
snakemake
React
Typescript
Django
Laravel
Facebook
Microsoft
Google
Alibaba
D3
Tencent