Meeta Mistry

adding explanations for running jobs on O2

1

Add some text before and after the sbatch exercise (within the markdown) to explain: - two commands to submit jobs on O2: srun and sbatch (at the beginning). Highlight that...

teaching the Intro to Shell lesson

2

Perhaps have one instructor guide ppl through the login process. And another to teach the remainder of the lesson

Add a pratical example of when we would use for loops to the lesson 06

have a instructor reference for troubleshooting first time login to O2

1

maybe a doc to access with common problems encountered and solutions?

When teaching with intro to RNA-seq (3-day) this (having bcbio in the PATH) conflicts with FASTQC and tools where we module load. Also in the HPC lecture it conflicts for...

missing bias value for Mov10_oe_3

2

In the multiqc report there s missingvalue for 5'-3'bias in the table. Troubleshoot this, especially since the value is computed by Qualimap

A question that comes up often is how to modify the script to work with PE data. For instructors that have handled this in a office hours, get a skeleton...

redundancy with qualimap+multiQC and troubleshooting

1

We can combine qualimap and multiqc review and Meeta's slide deck - there were some redundancies