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The next Helmholtz Hacky Hour will take place on Wednesday, December 9, 2020 from 2PM to 3PM! Topic: Sustainable Programming! more...
|...||...||@@ -198,6 +198,9 @@ To combine taxonomic with functional information for reads, the R script `Annota|
|7. Adjust filenames in `AnnotationCombine.R`, and select appropriate levels to analyze (close to the end of the script)|
|8. Run `AnnotationCombine.R` (Rstudio recommended, where subsequently other levels can be analyzed as well)|
|## Adapting CMP|
|If other than the default tools should be used for the analysis, they can be replaced by editing the corresponding script file, for example choosing another assembler than IDBA-UD by editing `analyze_denovo.sh` and changing the calls to IDBA-UD to the new tool.|
|Note however, that care must be taken that the output format of the new tool is compatible with the default tool, otherwise more elaborate modifications might become necessary.|