inti

MAGIC

MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.

pyuniprot

Python package to query and analyse UniProt

PyTorch-BigGraph

Generate embeddings from large-scale graph-structured data.

ggQQunif

:exclamation: This is a read-only mirror of the CRAN R package repository. ggQQunif — Compare Big Datasets to the Uniform Distribution

tcor

Fast thresholded correlation mattices

b3get

a python module to download Broad Bioimage Benchmark Collection images

knnie

k-Nearest Neighbor Information Estimator

pycon-pandas-tutorial

PyCon 2015 Pandas tutorial materials

kevlar

Reference-free variant discovery in large eukaryotic genomes

elvers

(formerly eelpond) an automated RNA-Seq workflow system

vitae

R Markdown Résumés and CVs

SoFoS

Rescale genetic polymorphism data to match a common sample size.

krait

An ultrafast tool for genome-wide survey of microsatellites and primer design

perf

PERF is an Exhaustive Repeat Finder

forward-thinking-pytorch

Pytorch implementation of "Forward Thinking: Building and Training Neural Networks One Layer at a Time"

soft-decision-tree

pytorch implementation of "Distilling a Neural Network Into a Soft Decision Tree"

einops

Flexible and powerful tensor operations for readable and reliable code (for pytorch, jax, TF and others)

LGL

Large Graph Layout

janggu

Deep learning infrastructure for genomics

Blast2lca

Calculates the lowest common ancestors of each query sequence in a Blast result

SoftBART

umap

Uniform Manifold Approximation and Projection

hdbscan

A high performance implementation of HDBSCAN clustering.

gramtools

Genome inference from a population reference graph

bamcov

:boom: Quickly calculate and visualize sequence coverage in alignment files

jax

Composable transformations of Python+NumPy programs: differentiate, vectorize, JIT to GPU/TPU, and more

gt

Easily generate information-rich, publication-quality tables from R

pysradb

Package for fetching metadata and downloading data from SRA/ENA/GEO

cython-blis

Cython wrapper for the BLIS linear algebra routines. Goal: fast BLAS off PyPi, no system dependency

paramnormal

Conventionally parameterized probability distributions