noahpieta

RNA-Science-Toolbox

A platform to do RNA science

SHAPELoop

BMC

Notes on Scientific Computing for Biomechanics and Motor Control

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

CDSfold_from_KiyoshiAsai

cheatsheets

Official Matplotlib cheat sheets

chira

Chimeric Read Annotator

deltaTE_from_SGDDNB

Detection of differential translated genes using Ribo-seq

dl-visuals

Over 200 figures and diagrams of the most popular deep learning architectures and layers FREE TO USE in your blog posts, slides, presentations, or papers.

gencode_regions

Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

GeneExpressionLevel_compaing

my personal notes for GeneExpressionLevel Compaing

gneiss

compositional data analysis toolbox

hmmlearn

Hidden Markov Models in Python, with scikit-learn like API

icSHAPE-pipe

Pipeline to calculate icSHAPE score in genome with sliding window strategy

IPyRSSA

Integrative Python library for RNA Secondary Structure Analysis

MOFA

Multi-Omics Factor Analysis

msds621

Course notes for MSDS621 at Univ of San Francisco, introduction to machine learning

ORQAS_from_EduardoEyras

ORF Quantification pipeline for Alternative Splicing

PrismNet

Predicting dynamic cellular protein-RNA interactions using deep learning and in vivo RNA structure

R2DT

Visualise RNA secondary structure using standard layouts

RNA_Covariation

A tutorial about RNA covary base pairs calling

RNAStructureIdentifier

Identifying the target secondary structure from RNA structure ensemble

scikit-optimize

Sequential model-based optimization with a `scipy.optimize` interface

siri

statannot

add statistical annotations (pvalue significance) on an existing boxplot generated by seaborn boxplot

statsmodels

Statsmodels: statistical modeling and econometrics in Python

StructureAnalysis

Collection of Scripts to Analyze 2º and 3º RNA Structure

the-turing-way

Host repository for The Turing Way: a how to guide for reproducible data science

time-series-classification-and-clustering

Time series classification and clustering code written in Python.

traveler

Template-based RNA secondary structure visualization