Is your (favourite) course not in there? Is a link dead? Did you find a typo?
Any contribution to this list is highly appreciated!
Selected topics (1)
108 Repositories
Page 1 / 5
Repository
Owner
Contributors
Topics
Stargazers
Days since last push
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
Contributors
MalteDLuecken
Lukas Heumos
Leander
lzhus
Tim Triche, Jr.
Single-cell sequencing
Python
RNA-seq
Transcriptomics
Days since last push
1423
License
-
https://www.sc-best-practices.org
Contributors
Lukas Heumos
Anna Schaar
Luke Zappia
Lisa Sikkema
seo
Single-cell sequencing
Transcriptomics
Python
Days since last push
4
License
other
Contributors
Meeta Mistry
marypiper
Radhika Khetani
Will Gammerdinger
Jihe Liu
Single-cell sequencing
Transcriptomics
RNA-seq
Days since last push
75
License
-
Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023
Contributors
tarachari3
Meichen Fang
Lior Pachter
Zitong Jerry Wang
Laura Luebbert, Ph.D.
General
Statistics
Next generation sequencing
Genomics
Single-cell sequencing
Transcriptomics
RNA-seq
Days since last push
294
License
other
Contributors
Khushbu Patel
Transcriptomics
Single-cell sequencing
RNA-seq
Days since last push
763
License
mit
Materials for short, half-day workshops
Contributors
marypiper
Will Gammerdinger
Radhika Khetani
Meeta Mistry
eberdan
General
Python
R
Rmarkdown
Unix/Linux
Version control
Enrichment analysis
FAIR data
Data visualization
Variant analysis
RNA-seq
Transcriptomics
Days since last push
104
License
other
Contributors
Helena
Saskia Hiltemann
Bérénice Batut
Björn Grüning
Wendi Bacon
Galaxy
General
Genomics
Next generation sequencing
Transcriptomics
RNA-seq
Single-cell sequencing
Variant analysis
ATAC-seq
Comparative genomics
ChIP-seq
Epigenetics
Genome annotation
Genome assembly
Metagenomics
Microbiology
Long read sequencing
Metabolomics
Proteomics
Data management
FAIR data
Reproducibility
Data science
Statistics
Machine learning
Snakemake
R
Python
Unix/Linux
Version control
Days since last push
1
License
mit
Workshops presented by the Gladstone Bioinformatics Core
Contributors
Natalie Gill
Ayushi Agrawal
reubenthomas
Kristina Hanspers
MichelaTr
General
R
Version control
Genomics
Transcriptomics
Single-cell sequencing
RNA-seq
Pathways and Networks
Data visualization
Statistics
ATAC-seq
Machine learning
Unix/Linux
Days since last push
28
License
-
Contributors
Åsa Björklund
Roy Francis
Susanne Reinsbach
Jennifer Fransson
Marcel Martin
Single-cell sequencing
Transcriptomics
RNA-seq
Days since last push
0
License
cc-by-4.0
Single RNA-seq data analysis with R (Finland, May, 2019)
Contributors
OLRAEN
Eija Korpelainen
Åsa Björklund
Rui Benfeitas
ahmedmahfouz
Single-cell sequencing
Transcriptomics
RNA-seq
Days since last push
1556
License
-
Contributors
Meeta Mistry
Radhika Khetani
marypiper
Will Gammerdinger
Jihe Liu
Transcriptomics
RNA-seq
Days since last push
159
License
-
Contributors
Rick Masonbrink
Arun Seetharam
Andrew Severin
Siva Chudalayandi
Aleksandra E. Badaczewska-Dawid
General
Nextflow
Workflows
Data management
Data visualization
Unix/Linux
ATAC-seq
Comparative genomics
Epigenetics
Genome annotation
Genome assembly
Metagenomics
RNA-seq
Transcriptomics
Variant analysis
Days since last push
96
License
mit
Contributors
Vladimir (Vlad) Kiselev
tallulandrews
Cellular Genomics Informatics
Prete
Yihui Xie
Single-cell sequencing
RNA-seq
Transcriptomics
Days since last push
1549
License
gpl-3.0
Introduction to bulk RNA-seq
Contributors
Radhika Khetani
Meeta Mistry
Will Gammerdinger
Jihe Liu
eberdan
Transcriptomics
RNA-seq
Days since last push
232
License
-
Melbourne Bioinformatics documentation in markdown format
Contributors
Vini Salazar
Vicky Perreau
Clare Sloggett
Simon Gladman
Anna Syme
General
Unix/Linux
Data management
Transcriptomics
RNA-seq
Genomics
Version control
Days since last push
92
License
-
The rendered book can be found at https://liulab-dfci.github.io/bioinfo-combio/
mit
Contributors
Jack Kang
liulab-dfci
Gali Bai
Ming Tang
Ninad P.Chaudhari
General
Next generation sequencing
Transcriptomics
Genomics
ATAC-seq
ChIP-seq
Epigenetics
Single-cell sequencing
Variant analysis
Days since last push
1673
License
mit
111
The package wrapping the book, for deployment via the Bioconductor build system.
Contributors
actions-user
Aaron Lun
Hervé Pagès
Alan O'Callaghan
Nitesh Turaga
Single-cell sequencing
Transcriptomics
RNA-seq
Next generation sequencing
R
Days since last push
180
License
-
SIB course on single cell transcriptomics by mostly using the Seurat pipeline
cc-by-4.0
Contributors
Geert van Geest
TaniaW
Rachel Marcone
Single-cell sequencing
Transcriptomics
RNA-seq
Days since last push
292
License
cc-by-4.0
A collection of modules that are combined into 1-5 day workshops on computational topics for the childhood cancer research community.
Contributors
Joshua Shapiro
Stephanie J. Spielman
Jaclyn Taroni
Ally Hawkins
Candace Savonen
General
Transcriptomics
RNA-seq
Single-cell sequencing
R
Pathways and Networks
Days since last push
1
License
other
Code and data repository for the 2020 physalia course on single cell RNA sequencing.
Contributors
Kirk Gosik
Orr Ashenberg
Dana Silverbush
Single-cell sequencing
Transcriptomics
R
Days since last push
2393
License
-
This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL
gpl-3.0
Contributors
Aurelien Dugourd
Javier Perales-Paton
Attila Gabor
Olga Ivanova
Charlotte Boys
Transcriptomics
RNA-seq
Next generation sequencing
Days since last push
1300
License
gpl-3.0
Contributors
Rasool Saghaleyni
Geert van Geest
Francesca Drummer
geogav
Mark Robinson
Spatial transcriptomics
Transcriptomics
Image analysis
Days since last push
574
License
cc-by-4.0
Contributors
Malachi Griffith
Zachary Skidmore
Huiming Xia
Obi Griffith
jeszyman
Next generation sequencing
Genomics
Transcriptomics
Variant analysis
CWL
Days since last push
22
License
mit
Tutorials and code for ISMB 2019 short course on Recent Advances in Statistical Methods and Computational Algorithms for Single-Cell Omics Analysis
Contributors
Yuchao Jiang
Rhonda Bacher
Jingshu Wang
Single-cell sequencing
RNA-seq
Transcriptomics
Days since last push
2663
License
-
Contributors
Roy Francis
Nima Rafati
jlorent
Jeanette Tångrot
Johan
Transcriptomics
RNA-seq
Next generation sequencing
Days since last push
964
License
gpl-3.0
Topics