Hello all,
An update: We now have interest from several intrepid instructors in teaching:
- Small Genomes de novo Assembly and Scaffolding https://wiki.galaxyproject.org/Events/GCC2016/Training#Small_Genomes_de_novo_Assembly_and_Scaffolding - Small Genome Annotation https://wiki.galaxyproject.org/Events/GCC2016/Training#Small_Genome_Annotation - RNA-seq analysis with Galaxy, using advanced workflows https://wiki.galaxyproject.org/Events/GCC2016/Training#RNA-seq_analysis_with_Galaxy.2C_using_advanced_workflows
That leaves:
- Phylogeny, Species identification (16S and 18S metagenomics tools) and Viral detection tools https://wiki.galaxyproject.org/Events/GCC2016/Training#Phylogeny.2C_Species_identification_.2816S_and_18S_metagenomics_tools.29_and_Viral_detection_tools - Antibiotics resistance predictions, Virulence genes, Insertion sequences, Phages and Plasmid profiling https://wiki.galaxyproject.org/Events/GCC2016/Training#Antibiotics_resistance_predictions.2C_Virulence_genes.2C_Insertion_sequences.2C_Phages_and_Plasmid_profiling - ChIP-Seq data analyses https://wiki.galaxyproject.org/Events/GCC2016/Training#ChIP-Seq_data_analyses (also needs a more robust description) - Metagenomics with Galaxy https://wiki.galaxyproject.org/Events/GCC2016/Training#Metagenomics_with_Galaxy (also needs a more robust description)
Any and all suggestions are welcome. Voting opens Monday.
Thanks,
Dave C
On Mon, Oct 19, 2015 at 1:14 PM, Dave Clements clements@galaxyproject.org wrote:
Hi All,
And this topic
- Metagenomics with Galaxy
https://wiki.galaxyproject.org/Events/GCC2016/Training#Metagenomics_with_Galaxy
needs a more robust description, and suggested instructors as well.
Thanks,
Dave C.
On Mon, Oct 19, 2015 at 1:05 PM, Dave Clements <clements@galaxyproject.org
wrote:
Hello all,
Most GCC2016 training nominations have now been posted to https://wiki.galaxyproject.org/Events/GCC2016/Training
And we ...
*Need possible Instructors for ...*
Most of those nominations included the nominator as a suggested instructor, but some did not. Voting doesn't open for another week, but I'd like to start work on identifying instructors for the course we don't have names for:
- Small Genomes de novo Assembly and Scaffolding
- Small Genome Annotation
https://wiki.galaxyproject.org/Events/GCC2016/Training#Small_Genome_Annotation
- RNA-seq analysis with Galaxy, using advanced workflows
- Phylogeny, Species identification (16S and 18S metagenomics tools)
and Viral detection tools https://wiki.galaxyproject.org/Events/GCC2016/Training#Phylogeny.2C_Species_identification_.2816S_and_18S_metagenomics_tools.29_and_Viral_detection_tools
- Antibiotics resistance predictions, Virulence genes, Insertion
sequences, Phages and Plasmid profiling https://wiki.galaxyproject.org/Events/GCC2016/Training#Antibiotics_resistance_predictions.2C_Virulence_genes.2C_Insertion_sequences.2C_Phages_and_Plasmid_profiling
If you have any interest in teaching, or have ideas on who could teach these topics, please let me know. Potential instructors can update the text of any workshop topic that they take on.
*Need a topic description for ...*
Finally, we have one topic that we only have a very short description for this workshop nomination:
- ChIP-Seq data analyses
https://wiki.galaxyproject.org/Events/GCC2016/Training#ChIP-Seq_data_analyses
This topic was nominated by Nobuo Horikoshi (cc'd here). Nobuo's particular concerns are
... guidelines strongly recommend biological replicates for ChIP-Seq but
handling replicates are not well described/developped in Galaxy yet. Furthermore, the most common IDR calculation for MACS is not suitable for SICER peak calling. Therefore, I thought handling biological replicates is practically essential task in Galaxy.
I've asked some folks with a deeper understanding of ChIP-Seq if they could transform Nobuo's description into a workshop description, but so far, no one has embraced that task.
If anyone on this list feels up that task, please let Nobuo and myself know. It would be nice to have a fuller description up no later than next Monday.
Thanks everyone,
Dave C.
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