From 88247fdc06616e6fd5d38e9a63d72b626105c3a2 Mon Sep 17 00:00:00 2001 From: aljpetri Date: Wed, 24 Jan 2024 14:54:11 +0200 Subject: [PATCH] Changed a sentence in README.md --- README.md | 7 ++++++- 1 file changed, 6 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index bfe285c..feda55d 100644 --- a/README.md +++ b/README.md @@ -60,7 +60,7 @@ To only run the isONform algorithm:
isONform_parallel --fastq_folder path/to/input/files --t --outfolder /path/to/outfolder --split_wrt_batches ``` -Note: Please always give absolute paths to the files or folders +Note: Please always use absolute paths to the files or folders The full isON-pipeline (isONclust, isONcorrect, isONform) can be found [here](https://github.com/aljpetri/isONform/blob/master/isON_pipeline.sh) and is run via: @@ -69,6 +69,11 @@ The full isON-pipeline (isONclust, isONcorrect, isONform) can be found [here](ht ``` (Please note that this requires isONclust [LINK](https://github.com/ksahlin/isONclust) and isONcorrect [LINK](https://github.com/ksahlin/isONcorrect) to be installed in addition to isONform) +To receive more information about the arguments used for the isON_pipeline script: +``` +./isON_pipeline.sh --help +``` + ## Outputs IsONform outputs three main files: transcriptome.fasta, mapping.txt, and support.txt. For each isoform that isONform reconstructs the id has the following form: x_y_z.