Qussai Abbas's repositories
16S_extraction_Barrnap
Automated 16S sequence extraction using Barrnap output gff files
AEGeAn
Integrated toolkit for analysis and evaluation of annotated genomes
amplicon_data_analysis
Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
Applied-Bioinformatics
Student course material for the Applied Bioinformatics course at Scripps Research
AppliedGenomeResearch
course about NGS data processing: genomics and transcriptomics
bioinformatics-Rosalind
Code inspired by Bioinformatics Algorithms: an Active Learning Approach.
Bioinformatics-with-Python-Cookbook-Second-Edition
Bioinformatics with Python Cookbook Second Edition, published by Packt
bioperl-live
Core BioPerl 1.x code
Data-Analysis-and-Machine-Learning-Projects
Repository of teaching materials, code, and data for my data analysis and machine learning projects.
data-scientist-roadmap
Toturials coming with the "data science roadmap" picture.
Deep-Learning-DNA-Sequences
Deep learning for identifying important motifs in DNA sequences. Exploration of the structure of the human genome by training neural network architectures (CNN, LSTM, Attention).
DNABERT
DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome
Filter-spectra
Filter spectra that didn't match to any peptides from mzml files
GENA_LM
GENA-LM is a transformer masked language model trained on human DNA sequence.
Introduction-to-Metagenomics-Summer-Workshop-2019
Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.
Liu2020ProteinCell
Pipeline & Reproducible analysis examples for amplicon and metagenome in microbiome
Machine-Learning-A-Z-hands-on-Python-And-R-in-data-Science
Repository For Codes And Concept Taught in Udemy Course
nucleotide-transformer
🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics
oktoberfest
Public repo oktoberfest
pango-designation
Repository for suggesting new lineages that should be added to the current scheme
Paper-Reading
📖 Paper reading list in dialogue systems and natural language generation (constantly updating 🤗).
pytorch-seq2seq
Tutorials on implementing a few sequence-to-sequence (seq2seq) models with PyTorch and TorchText.
q2-dada2
QIIME 2 plugin wrapping DADA2
spectrum_io
IO related functionalities for oktoberfest.
sshfs-win
SSHFS For Windows
Virus-DNA-classification-BERT
Classification of 6 viruses including covid-19 based on their DNA sequences using Transformers