Valentyn Bezshapkin's repositories
metagenome_assembly
WDL Workflow for metagenome assembly
blackjax
BlackJAX is a sampling library designed for ease of use, speed and modularity.
drep
Rapid comparison and dereplication of genomes
anvio
An analysis and visualization platform for 'omics data
scipy
SciPy library main repository
anvio.org
The anvi'o community web page
GTDBTk
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
pyreadr
Python package to read and write R RData and Rds files into/from pandas dataframes. No R or other external dependencies required.
dgl
Python package built to ease deep learning on graph, on top of existing DL frameworks.
DeepFRI
Deep functional residue identification
spatial_scog_workshop_2022
Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
kneaddata
Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.
infotopopy
computes most of information functions (joint entropy, conditional, mutual information, total correlation information distance) and deep information networks
picrust2
Code, unit tests, and tutorials for running PICRUSt2
Cookbook
The Data Engineering Cookbook
kds
An intuitive library to plot evaluation metrics.
rms
Regression Modeling Strategies
plot-likert
Python library to visualize results from Likert scale survey questions
data-science-select-talks
A curated collection of data science relevant talks, due to the lack of more specific term :)
sra-downloader
A script for batch-downloading data from SRA built on SRA-Toolkit.
start_jupyter_cm
Add entries to start IPython from the context menu in Windows
camda2021-dili
CAMDA 2021 winning solution for "Literature AI for Drug Induced Liver Injury" challenge
kaggle-competitions
Archive for Kaggle competitions.
math-sheets
Archive for my math self-education
reinforcement-learning
Implementation of Reinforcement Learning Algorithms. Python, OpenAI Gym, Tensorflow. Exercises and Solutions to accompany Sutton's Book and David Silver's course.
mit-deep-learning
Tutorials, assignments, and competitions for MIT Deep Learning related courses.