Azka Saleem's Projects
Copies of notebooks used in the practical sessions for Algorithms for DNA Sequencing
Config files for my GitHub profile.
Bioinformatics Specialization Journey to the Frontier of Computational Biology. Master bioinformatics software and computational approaches in modern biology.
minimal example implementations for bioinformatics workflow managers
Book
a deep-learning-based framework for studying m6A
Jonah Lawrence's Profile README
Dimer is a Python-based package for testing differential methylation in m6A sequencing data.
This app is a Streamlit dashboard that allows you to explore the data in the dataset.
Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
Analysis of RNA epitranscriptome sequencing data with affinity-based shotgun sequencing approach
My personal repo.
Identification and visualization of functional differential m6A methylation genes (FDmMGenes) and single base DmM sites.
We present HRIBO (High-throughput annotation by Ribo-seq), a workflow to enable reproducible and high-throughput analysis of bacterial Ribo-seq data. The workflow performs all required pre-processing steps and quality control. Importantly, HRIBO outputs annotation-independent ORF predictions based on two complementary prokaryotic-focused tools, an
Post-transcriptional modification site recognition
Intro to ChIPseq using HPC
A pipeline to process m6A-seq data and down stream analysis.
A bioinformatics pipeline for the evolution analysis of m6A in plants
MACS -- Model-based Analysis of ChIP-Seq
Scripts for paper entitled "Limits in the detection of m6A changes using MeRIP/m6A-seq
二代测序数据分析
Phylogenetic orthology inference for comparative genomics
This repository include Tips and Tricks used in Python by using most popular Pandas Library.
PEA: an integrated R toolkit for epitranscriptome analysis