moved the paragraph on parameters to below advanced options

Former-commit-id: e24b800
GoekeLab · Jul 28, 2020 · ed21e44 · ed21e44
1 parent 439fdae
commit ed21e44
Showing 1 changed file with 1 addition and 2 deletions.
diff --git a/vignettes/bambu.Rmd b/vignettes/bambu.Rmd
@@ -258,6 +258,7 @@ se <- bambu(reads = bamFiles, readClass.outputDir = "./bambu/", annotations = an
 ```
 # Bambu parameters {#bambu-parameters}
 ## Advanced Options
+For transcript discovery we recommend to adjust the parameters according to the number of replicates and the sequencing throughput. The most relevant parameters are explained here. You can use any combination of these parameters.   
 ### More stringent filtering thresholds imposed on potential novel transcripts    
 
 * Keep novel transcripts with min 5 read count in at least 1 sample:
@@ -286,8 +287,6 @@ bambu(reads, annotations, genomeSequence, ncore = 8)
 ```
 See *[manual](https://github.com/GoekeLab/bambu/blob/master/docs/bambu_0.1.0.pdf)* for details to customize other conditions.
 
-For transcript discovery we recommend to adjust the parameters according to the number of replicates and the sequencing throughput. The most relevant parameters are explained here. You can use any combination of these parameters.
-
 # Getting help {#get-help}
 
 Questions and issues can be raised at the Bioconductor support site (once bambu is available through bioconductor): https://support.bioconductor.org. Please tag your your posts with bambu.