# HG changeset patch # User proteomisc # Date 1701532132 0 # Node ID cc619066d6f75462d73b0ce49f490eb31a7e18a3 # Parent ee7df29f66cdfc1018e58b4443daaa96bd8aa132 Deleted selected files diff -r ee7df29f66cd -r cc619066d6f7 Preprocess_DataSet.xml --- a/Preprocess_DataSet.xml Sat Dec 02 15:48:01 2023 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,306 +0,0 @@ - - Preprocessing microarrays datasets.Contains Background Correction, Normalization within arrays, between arrays (depending on the number of channels) and summarization. - - citations.xml - - - r-base - r-batch - bioconductor-affyplm - bioconductor-affy - bioconductor-annotate - r-knitr - bioconductor-marray - r-idpmisc - r-kernsmooth - r-rmarkdown - r-markdown - bioconductor-limma - r-idpmisc - - - - - - - - - - 'Read.Project' in value.name - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -.. class:: infomark - -**Authors** T.Bensellak, B.Ettetuani. - ---------------------------------------------------- - -================================== -Preprocessing Microarray DataSet -================================== - ------------ -Description ------------ - -This tool is used as first phase of the global workflow, the preprocessing . - ------------------ -Workflow position ------------------ - -**Upstream tools** - -+-------------------------------+------------------------------+---------+ -| Name | output file |format | -+===============================+==============================+=========+ -| Read.DataSet.Microarray | MicroArrayObject.RData | Rdat | -+-------------------------------+------------------------------+---------+ - - -**Downstream tools** - -+-----------------------------------------------+----------------------------------------------+---------+ -| Name | Output file | Format | -+===============================================+==============================================+=========+ -|Tests and Selection | Test.results.tsv | Tabular | -+-----------------------------------------------+----------------------------------------------+---------+ - ------------ -Input files ------------ - -+---------------------------+------------+ -| Parameter : num + label | Format | -+===========================+============+ -| Image | Rdata | -+---------------------------+------------+ -| Methods parmeters | Numeric | -+---------------------------+------------+ - ------------- -Output files ------------- - -**Microarray.Preprocessing.RData** - -**Matrix.Data.tsv** - ------------------------------- -General schema of the workflow ------------------------------- - -https://bensellak.github.io/microarrays-galaxy/workflow.png - - - - - - diff -r ee7df29f66cd -r cc619066d6f7 preprocess_datasets/Preprocess_DataSet.xml --- a/preprocess_datasets/Preprocess_DataSet.xml Sat Dec 02 15:48:01 2023 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,306 +0,0 @@ - - Preprocessing microarrays datasets.Contains Background Correction, Normalization within arrays, between arrays (depending on the number of channels) and summarization. - - citations.xml - - - r-base - r-batch - bioconductor-affyplm - bioconductor-affy - bioconductor-annotate - r-knitr - bioconductor-marray - r-idpmisc - r-kernsmooth - r-rmarkdown - r-markdown - bioconductor-limma - r-idpmisc - - - - - - - - - - 'Read.Project' in value.name - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -.. class:: infomark - -**Authors** T.Bensellak, B.Ettetuani. - ---------------------------------------------------- - -================================== -Preprocessing Microarray DataSet -================================== - ------------ -Description ------------ - -This tool is used as first phase of the global workflow, the preprocessing . - ------------------ -Workflow position ------------------ - -**Upstream tools** - -+-------------------------------+------------------------------+---------+ -| Name | output file |format | -+===============================+==============================+=========+ -| Read.DataSet.Microarray | MicroArrayObject.RData | Rdat | -+-------------------------------+------------------------------+---------+ - - -**Downstream tools** - -+-----------------------------------------------+----------------------------------------------+---------+ -| Name | Output file | Format | -+===============================================+==============================================+=========+ -|Tests and Selection | Test.results.tsv | Tabular | -+-----------------------------------------------+----------------------------------------------+---------+ - ------------ -Input files ------------ - -+---------------------------+------------+ -| Parameter : num + label | Format | -+===========================+============+ -| Image | Rdata | -+---------------------------+------------+ -| Methods parmeters | Numeric | -+---------------------------+------------+ - ------------- -Output files ------------- - -**Microarray.Preprocessing.RData** - -**Matrix.Data.tsv** - ------------------------------- -General schema of the workflow ------------------------------- - -https://bensellak.github.io/microarrays-galaxy/workflow.png - - - - - -