obenno

ShinySyn

A shiny application to visualize MCscan result

scSpotlight

A shiny app for single cell analysis based on Seurat

cutqc

A simple wrapper for cutadapt and fastqc, and generate fastqc report with rmarkdown.

miRDP2_docker

Docker container for miRDeep-P2 miRNA identification pipline

APA

Used for Alternative Polyadenylation Analysis

bioconda-recipes

Conda recipes for the bioconda channel.

converters

different file format converters

CUHK-Thesis-Template

cuhkthesis

Latex thesis template for CUHK graduate students

datasciencecoursera

emacs.d

An Emacs configuration bundle with batteries included

emacs.d-1

Efficient Emacs setup.

gitignore

A collection of useful .gitignore templates

log4j-detector

Scanner that detects vulnerable Log4J versions (CVE-2021-44228, CVE-2021-45046, etc) on your file-system within any application. It is able to even find instances that are hidden several layers deep. Works on Linux, Windows, and Mac, and everywhere else Java runs, too!

miscs

nanom6A

obenno.r-universe.dev

parallel-fastq-dump

parallel fastq-dump wrapper

PHAS_Discovery

rnaseq

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

scATAC-seq

scATAC-seq pipeline based on nextflow

scRNA-seq

scRNA-seq pipeline implemented with nextflow

scSpotlight_docs

Documentation website for scSpotlight, built with blogdown, hugo and relearn theme

Shiny_BLAST

Soybean_salinity_ONT_DRS

Repo of scripts for analyzing soybean ONT DRS transcriptome under salt stress

StarScope

ThunderBio scRNA-seq pipeline

trackcluster

An analysis pipeline for Nanopore direct-RNA sequencing

trimal

A tool for automated alignment trimming in large-scale phylogenetic analyses. Development version: 1.4

xpore

Identification of differential RNA modifications from nanopore direct RNA sequencing