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2020_scworkshop

Code and data repository for the 2020 physalia course on single cell RNA sequencing.

algorithms-for-dna-sequencing

Codes from Coursera's course Algorithms for DNA sequencing, part of genomic data science specialization offered by Johns Hopkins University

all-of-statistics

Self-study on Larry Wasserman's "All of Statistics"

anndata

Annotated data.

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

atac-seq-and-single-cell-atac-seq-analysis

ATAC-seq and scATAC-seq module developed by the University of Nebraska Medical Center

batch-effect-removal-benchmarking

A benchmark of batch-effect correction methods for single-cell RNA sequencing data

bedtools2

bedtools - the swiss army knife for genome arithmetic

bioinformatics-resources

Collection of Bioinformatics-related books and training materials

bioinformatics_resources

This repo is dedicated to make bioinformatics resources available for anyone who wish to enter this field. (You may find it useful or not useful based on your level). I am still embarking my path in the field, just posting things based on my knowledge and the things which worked for me personally, they may/may not work with you, totally fine.

caltech-introduction-to-programming-for-the-biological-sciences-bootcamp

Caltech Introduction to Programming for the Biological Science Bootcamp

cellrank

CellRank: dynamics from multi-view single-cell data

computational-discovery-on-jupyter

Computational Discovery on Jupyter Open Educational Resource by Neil J. Calkin, Eunice Y. S. Chan, and Robert M. Corless

coursera-algo-bioinf

Solutions to Algorithms for DNA Sequencing

coursera-genomic-data-science

Genomic data science specialization

coursera_genomic_data_science_specialization

cousera_google-data-analytics-professional-certificate

Quizzes & Assignment Solutions for Google Data Analytics Professional Certificate on Coursera. Also included a few resources on side that I found helpful.

ffq

A tool to find sequencing data and metadata from public databases.

first-steps-with-python-training

repository of the 3-day course "First steps with Python in Life Sciences" from SIB-training

fundamentals-of-bioinformatics

Introduction to bioinformatics command line tools on the cloud, developed by Dartmouth College

genomic-data-science

This repositiory is home to my Python work in John Hopkins University's Genomic Data Science Specialization, which includes Python for Genomic Data Science, Algorithms for Genomic Data Science, and Statistics for Genomic Data Science.

genomic-data-science-jhu

Genomics data science specialization (John Hopkins University)

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics and data science

in-depth-ngs-data-analysis-course

intermediate-python-training

intro-to-shell-flipped

intro_to_comp_neuro

Course content for Introduction to Computational Neuroscience Course

introduction-to-data-science-for-biology

Python-based machine learning and data science module from SFSU developed for the NIGMS Sandbox project

kallistobustools

kallisto | bustools workflow for pre-processing single-cell RNA-seq data

kb_python

A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing