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BIMSBbioinfo / pigx_sars-cov-2

PiGx SARS-CoV-2 wastewater sequencing pipeline
GNU General Public License v3.0
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make read coverage filter for mutations dynamically #117

Closed vicfabienne closed 1 year ago

vicfabienne commented 2 years ago

Problem The variant-report now filters for mutations that have minimal coverage. However this is a paramter that can improve but also decrease the deconv. results and the optimal value is highly dependent on the datatype.

Issue This paramter should be given as input paramter through the settings file with a default of e.g. 50 or smth like that.

jonasfreimuth commented 2 years ago

This will be resolved in #121

jonasfreimuth commented 2 years ago

Branch in question: general-improvements

jonasfreimuth commented 1 year ago

Fix is merged now.