From 653a236134569f6d623391a01c51308e38234ae4 Mon Sep 17 00:00:00 2001 From: Annika Fust Date: Mon, 14 Nov 2016 14:23:25 +0100 Subject: [PATCH] redirect to correct manual --- docs/index.md | 39 +-------------------------------------- 1 file changed, 1 insertion(+), 38 deletions(-) diff --git a/docs/index.md b/docs/index.md index c184a2d..a53fa14 100644 --- a/docs/index.md +++ b/docs/index.md @@ -1,40 +1,3 @@ **Welcome to the UROPA documentation!** -UROPA is a command line based tool, intended for genomic region annotation. Based on a configuration file, different target features can be prioritized with multiple integrated queries. -These can be sensitive for feature type, distance, strand specificity, feature attributes (eg. protein_coding) or the anchor position relative to the feature. -UROPA can incorporate reference annotation files (GTF) from different sources, like Gencode, Ensembl, or RefSeq, as well as custom reference files produced by the user. - -**Advantages of UROPA** - -* Simple usage: No programming -* Utilization of all available GTF files as annotation database -* Detect the most appropriate annotation with flexible keys that allow robustness and simple customization, such as - * feature type - * feature anchor - * feature direction relative to peak location - * filter for attribute values, e.g. "protein_coding" - * strand specificity -* Preparation of custom annotation files -* One run with multiple sets of parameters by multiple queries -* Graduated annotation due to priorization -* Different easily-readable output tables (AllHits, FinalHits, BestperQuery_Hits). -* Visual summary for annotation evaluation -* Annotation with default values - -**How to cite** - -Please cite the paper describing UROPA when using it in your research: -tba - -**Contribute** - -Source Code [here](https://github.molgen.mpg.de/loosolab/UROPA) -Further details see [here](http://uropa.readthedocs.io/en/latest/install/) - -**Support** - -If you have any issue feel free to send an email to Maria Kondili (maria.kondili@mpi-bn.mpg.de) - -**Licence** - -The project is licensed under the MIT license +Please visit the correct UROPA [manual](http://uropa-manual.readthedocs.io/) \ No newline at end of file