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pymcadre

pymCADRE enables the reconstruction of tissue-specific metabolic models in Python using transcriptomic data and information of the network topology.

pynanolab

all in one GUI software for data analysis and visualization

pypesto

python Parameter EStimation TOolbox

pysb

Python framework for Systems Biology modeling

pyspm

Python library to handle Scanning Probe Microscopy Images. Can read nanoscan .xml data, Bruker AFM images, Nanonis SXM files as well as iontof images(ITA, ITM and ITS).

pytcga

DEPRECATED: Store and query public TCGA data

pyth-ion

Pyth-Ion Nanopore Analysis

qmc

#quantum-annealing #qunatum-computing #TSP #quantum-montecarlo

qsar-drugdiscovery-with-rdkit

ChEMBL Database used to create Lipinski Descriptors (ADME Pharmokinetic Profile) to use in a Random Forest Regression Model

qsar-tools

Scripts for assisting in modeling quantitative structure activity relationships from 2D chemical data

quantum

An attempt at understanding qunatum computing with a classical computer using JavaScript and Python. Smart. I know.

qunatum_computing_for_computer_scientists

r-project-scrna-seq-clustering

Clustering of Lung cancer scRNA-seq data

rapids-single-cell-examples

Examples of single-cell genomic analysis accelerated with RAPIDS

rapids_singlecell

Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.

raspa2

Classical molecular simulation code

rdata-project-manipulation

FPKM data manipulation with NCBI GEO data sets

rdkit

The official sources for the RDKit library

refinery-platform

The Refinery Platform is a data management, analysis and visualization system

ringspy

A Python automated geometric generation tool that generates 3D meshes of prismatic cellular solids with radial growth rules based on Voronoi diagrams.

rna-seq-in-the-cloud

An Easy to Use Analysis System for All Human Public bulk RNAseq Data!

rnalysis

RNA sequencing analysis pipeline

rnaseq_workflow

snakemake workflow for bulk RNA-seq workflow using STAR-edgeR

robotics_python

Robotics Mathematical modeling and theory with Python (learning through extensive numerical simulations and animations.)

rssalib

A library for stochastic simulation of complex biochemical reactions

salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

sbml-test-suite

The SBML Test Suite is a conformance testing system. It allows developers and users to test the degree and correctness of the SBML support provided in a software package.

sbo

The Systems Biology Ontology (SBO) is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational modeling.

scanpy-tutorials

Scanpy Tutorials.