GeneLab_Data_Processing
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nasa
Planned Fixes (Marked as done when this PR includes implementations): - [x] #20 - [ ] #22 - [x] #32
## Expected Behavior Memory specified for STAR_ALIGN should be appropriate. ## Actual Behavior Memory specified is often insufficient when using larger references (i.e. from certain organisms like homo sapiens). Depending...
## Expected behavior Workflow launch using approach 3 (custom runsheet) should not require setting `gldsAccession` ## Actual behaviour Workflow checks if `gldsAccession` is unset and raises an error on attempting...
# Description When sample names can be interpreted as numerical instead of string (e.g. 12), certain V&V checks incorrectly do so result in failure to match '1' and 1. ##...
# Description Workflow should handle technical replicates appropriately. ## Approaches DESeq2 provides a collapseReplicates function that sums counts based on a factor to group samples by. The rationale has two...
Currently workflow user is expected to replace this value manually in workflow module file. Instead, the adaptor should be automatically determine, perhaps from the raw fastQC reports/multiQC and supplied to...
Note: This organism isn't located on Ensembl from my searches. This may block this request.
With large number of groups this step can be prohibitively slow For Wald test, a parallel computation would be helpful. For group statistics, both parallel and a switch to vector...
