joschif Goto Github PK

2018-10-09-embl

academic_website

atom-language-julia

A Julia language support package for the Atom editor

bear

A Better Sequencing Simulator for Metagenomics

clusterfinder

Predicting biosynthetic gene clusters in genomes

concoct

Clustering cONtigs with COverage and ComposiTion

delegate_covar

Wrapper and helper functions to use bulk RNA-seq differential expression methods with single-cell data

ena-downloader

Downloads read files from ENA.

glulight

Glucose lamp

instabot

Artistic af, man! 🔥

jupytext

Jupyter Notebooks as Markdown Documents, Julia, Python or R scripts

latentstrainanalysis

Partitioning and analysis methods for large, complex sequence datasets

lshash

A fast Python implementation of locality sensitive hashing.

markdown-cv

a simple template to write your CV in a readable markdown file and use CSS to publish/print it.

merlot

Reconstruct the lineage topology of a scRNA-seq differentiation dataset.

mgs-canopy-algorithm

Fork of the canopy clustering algorithm of Nielsen et al.

motus_v2

motus - a tool for marker gene-based OTU (mOTU) profiling

pando

Multiome GRN inference.

plotting

Some scripts for plotting

pystruct

Simple structured learning framework for python

python_koans

Python Koans - Learn Python through TDD

rstudio_atom_theme

Contains a CSS file that styles a selected RStudio editor theme the atom way

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scripts

Collection of more or less helpful little scripts.

scvi-tools

Deep probabilistic analysis of single-cell omics data

seqlearn

Sequence learning toolkit for Python

signac

R toolkit for the analysis of single-cell chromatin data

slic

Web app to design primers for SLIC.

slingshot

Functions for identifying and characterizing continuous developmental trajectories in single-cell data.

sysbio

Webpage for the SysBio retreat