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A solution to enable building and managing a Spark/Hadoop cluster on the EMBL-EBI Codon Slurm HPC cluster

Deployment scripts to run the Bioexcel Binder service.

Compute the distribution of reads on genomic locations; compute the coverage of repeat elements for each cell barcode; extract the reads spanning splicing junctions

split paired FASTQ files into chunks of nseq sequences

Extract groups of sequences sharing the same barcode using a graph approach

ci/cd and k8s example

PDBeCIF is a lightweight pure python package for manipulating mmCIF formatted files distributed by the wwPDB. The package contains objects and modules for accessing mmCIF data. The documentation can be found at: http://pdbe.gitdocs.ebi.ac.uk/PDBeCIF/

https://tsi-ccdoc.readthedocs.io/en/latest/ResOps/2019/gitlab/02_create-sample-project.html

Demo for workshop 2019-09-04

Exercise 2 of the ResOps training

resops play