diff --git a/docs/output.md b/docs/output.md index c9583e76e..f713c311b 100644 --- a/docs/output.md +++ b/docs/output.md @@ -367,7 +367,7 @@ The majority of RSeQC scripts generate output files which can be plotted and sum -This script predicts the "strandedness" of the protocol (i.e. unstranded, sense or antisense) that was used to prepare the sample for sequencing by assessing the orientation in which aligned reads overlay gene features in the reference genome. The strandedness of each sample has to be provided to the pipeline in the input samplesheet (see [usage docs](https://nf-co.re/rnaseq/usage#samplesheet-input)). However, this information is not always available, especially for public datasets. As a result, additional features have been incorporated into this pipeline to auto-detect whether you have provided the correct information in the samplesheet, and if this is not the case then the affected libraries will be flagged in the tale under 'Strandedness Checks' elsewhere in the report. If required, this will allow you to correct the input samplesheet and rerun the pipeline with the accurate strand information. Note, it is important to get this information right because it can affect the final results. +This script predicts the "strandedness" of the protocol (i.e. unstranded, sense or antisense) that was used to prepare the sample for sequencing by assessing the orientation in which aligned reads overlay gene features in the reference genome. The strandedness of each sample has to be provided to the pipeline in the input samplesheet (see [usage docs](https://nf-co.re/rnaseq/usage#samplesheet-input)). However, this information is not always available, especially for public datasets. As a result, additional features have been incorporated into this pipeline to auto-detect whether you have provided the correct information in the samplesheet, and if this is not the case then the affected libraries will be flagged in the table under 'Strandedness Checks' elsewhere in the report. If required, this will allow you to correct the input samplesheet and rerun the pipeline with the accurate strand information. Note, it is important to get this information right because it can affect the final results. RSeQC documentation: [infer_experiment.py](http://rseqc.sourceforge.net/#infer-experiment-py)