(please click the badges they should work 😃)
Björn Grüning bgruening
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bgruening
/ Pandas Widget - Time Series, Search, and Filtering.ipynb
Last active
March 6, 2023 19:36
— forked from chriddyp/Pandas Widget - Time Series, Search, and Filtering.ipynb
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bgruening
/ pgp_pilot_library_info.yaml
Created
October 14, 2019 14:34
— forked from IsmailM/pgp_pilot_library_info.yaml
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| --- | |
| destination: | |
| type: library | |
| name: 'PGP-UK Open Access Data' | |
| description: 'Open Access Genomic, Transcriptomic and Methylomic Data from the Personal | |
| Genome Project UK. DOI: 10.1186/s12920-018-0423-1' | |
| items: | |
| - name: Genetic Data (WGS) | |
| description: Open access WGS data from the PGP-UK Project | |
| items: |
bgruening
/ mercurial_fix_merge_conflicts.md
Created
May 5, 2019 18:42
mercurial (hg) resolve merge conflicts by accepting upstream changes
~/venv/bin/hg resolve -t internal:other --all
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| * galaxy | |
| * https://github.com/bgruening/docker-galaxy-ngs-preprocessing | |
| * https://github.com/bgruening/galaxy-rna-seq | |
| * https://github.com/bgruening/galaxy-rna-structural-analysis | |
| * https://github.com/bgruening/galaxy-rna-workbench | |
| * https://github.com/bgruening/docker-galaxy-exome-seq/pull/15 | |
| * https://github.com/bgruening/docker-galaxy-epigenetics | |
| * https://github.com/bgruening/docker-galaxy-phylogenetics | |
| * https://github.com/bgruening/docker-recipes/blob/master/galaxy-deeptools | |
| * https://github.com/shiltemann/galaxy-metagenomics |
bgruening
/ gist:b4f7b33f886a064715ad00a9b7ea3bd6
Created
March 27, 2017 20:08
workflow_incovation_log_for_john
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| > grep galaxy.workflow.run handler0.log | tail -n 400 | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,527 Workflow step 119445 of invocation 22697 delayed (8.096 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,529 Workflow step 119446 of invocation 22697 delayed (1.118 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,533 Workflow step 119439 of invocation 22697 delayed (2.844 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,534 Workflow step 119440 of invocation 22697 delayed (1.142 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,535 Workflow step 119441 of invocation 22697 delayed (0.544 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,537 Workflow step 119442 of invocation 22697 delayed (0.666 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,541 Workflow step 119443 of invocation 22697 delayed (0.587 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,542 Workflow step 119448 of invocation 22697 delayed (0.541 ms) | |
| galaxy.workflow.run DEBUG 2017-03-26 09:34:44,543 Workflow step 119447 of invocation 22697 |
bgruening
/ get_all_containers.py
Created
January 23, 2017 19:47
get all biocontainers via Quay.io API
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| #!/usr/bin/env python | |
| import argparse | |
| import json | |
| import sys | |
| import tempfile | |
| try: | |
| import requests | |
| except ImportError: |
bgruening
/ biocontainers_stats_01_2017.md
Last active
January 23, 2017 19:37
BioContainers stats January 2017
- 263 GB
- 2598 overall Images
- 332 Perl Images
- 666 R Images (!BioC)
- 266 BioConductor Images
- 817 Python Images
Dear training enthusiast,
We have started to work on an unification of the Galaxy training material as discussed during the GCC 2016. As a first example we have chosen our Exome-Seq tutorial and have ported it over to give a real world example of how we imagine the next generation of Galaxy training looks like. Look by yourself: https://github.com/bgruening/training-material/tree/master/Exome-Seq
- Slides are written in reveal.js
bgruening
/ docker_involucro.md
Last active
October 7, 2016 20:44
Build Docker container the involucro way with Conda packages
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