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anaquin

awesome-deep-learning

A curated list of awesome Deep Learning tutorials, projects and communities.

bioinf-python

Python for Bioinformatics

bioinformatics-with-python-cookbook-second-edition

Bioinformatics with Python Cookbook Second Edition, published by Packt

biomarker_identification

Biomarker Identification for Bravo, Williams, Gkoutos and Acharjee

colab-biolab

cooccurrence_clustering

covid_q-a_chatbot

A simple chat bot that answers common questions about COVID.

cptac-proteomics-pipeline

The research and processing repo for import of CPTAC data into cBioPortal

cruk-summer-school-2018

Summer school course materials collection

cytomod

Create modules of co-signaling cytokines for analysis of multiplexed cytokine data (e.g. Luminex)

cytoscape_workflows

collection of notebooks with different cytoscape workflows

data_science_in_biology

projects using galaxy, python, linux command line to analyze sequencing data

de_compare

deeplearning-biology

A list of deep learning implementations in biology

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

ea-utils

Automatically exported from code.google.com/p/ea-utils

galaxy

Data intensive science for everyone.

gdc-client

GDC Data Transfer Tool

heatmap3

heatmap3 is an improved heatmap package. It is completely compatible with the original R function heatmap, and provides some more powerful and convenient features.

i-shell-do-this

A growing repository of shell scripts to automate day-today activities of a NGS data analyst

iap

Illumina analysis pipeline

inspire-ctdna

Custom R scripts for data visualization and statistical analysis for Bratman, Yang et al. 2020 Personalized circulating tumor DNA analysis as a predictive biomarker in solid tumor patients treated with pembrolizumab

intro-to-text-analytics

introduction to text analytics in python training for odsc west 2018

kernelized-rank-learning

Kernelized rank learning for personalized drug recommendation

lime

Lime: Explaining the predictions of any machine learning classifier

linkedin-jobs-scraper

Scrape LinkedIn job postings using Selenium WebDriver with python bindings

long-rna-seq-pipeline

STAR based ENCODE Long RNA-Seq processing pipeline

louper

Convert Seurat objects to 10x Genomics Loupe files.

luminosity

Python module to handle Luminex raw data in csv format