With DoOnlist you can run many analysis on a list.
Select the elements you want to include and press the good button.
Sorry, all displayed buttons may not be working, depending on context...
AddTagExamples | Use the 'Add tag' value to help me to know in which context you want to run DoOnList
You can add tags in the format key=value (no space around the = , and generally the upper/lowercase is important) * For GxDb I need to know the transcriptomic experiment you want to use : experiment=11 (or use the select for RadarGenerator) * If you know which organism is concerned : organism=Homo_sapiens (please with underscore '_') * For ImAnno use cadre=3 organ=3 for the ear, cadre=1 organ=1 for the eye * If you want to see stamps instead of an HtmlTable for the ImAnno pattern use stamp=yes |
Help | Displays help about each possible action. |
SelectAll | Selects the whole list |
SelectNone | Selects nothing from the list |
SelectInvert | Inverts the selection |
DisplayList | Displays the selected elements in an other window allowing you to copy/paste |
Sort | Sorts the lines in ascending order |
OnTop | Moves the selected lines at the top of the list |
Unique | Removes duplicate lines |
KeepSel | Keeps only selected lines |
SplitInWords | DoOnlist on the list of all words from the select text |
Trim | DoOnlist on the list of all lines where ; , : newline are removed |
BlankSeparator | DoOnlist on the list of all lines where ; , : are replace by blank |
JoinWithComma | Displays all lines joined with , (comma) as one line to use with copy-paste |
SaveAs | Saves the selected elements on your computer |
Archive | Archives the selected elements in a file on the server. To be retrieved later. |
Retrieve | Calls back an archived list |
AddTag | Allows you to add information to specify the context in which the process will be run for example experiment=6, cadre=3,organ=3 |
Cluspack | Runs Cluspack with the values taken from each line |
GeCo | Redirects to the GeCo Web Site with the list of genes |
GSEA | Runs a GSEA analysis. Columns are Bidon, ProbesetId, SignalIntensity, Bidon, AnalysisSoftware, RealExp |
EvoluCode | Displays the Phylogenic EVoluCode |
IdAcGnForHsap | Displays ID Ac Gn Synonyms and OrfNames |
HtmlTable | Outputs the list as HtmlTable allowing selections of columns. |
ShowProbesets | Displays all about the probesets |
RadarGenerator | Creates a Transcriptomics Radar plot with the selected genenames or probesets. First column must be gene or ps. Last column is experiment or select it. |
inBackground | Runs the RadarGenerator in Background ... The browser will no more freeze. |
ClusterList | Displays the list of clusters corresponding to the select cluster context (pkEx pkAs pkCs = the 3 first columns) |
ClusterComposition | Displays the probeset compisition of the selected cluster. First column must be the pk_cluster |
InternalRatioBatch | Runs InternalRatioBatch on the selected text in background. Results will be available in DoOnList and HtmlTable |
GoAnnotation | Displays the GoAnnotation of the selected genes. |
GoWithGenes | Displays the GOs of the selected genes grouped GO by GO ordered from the must populated |
GoOverview | Gives an overview of the main GO sets |
GoEnrichment | Displays the GO Enrichment comparing the current list and the list previously archived and selected in the Retrieve field. |
ImAnnoCluspack | Runs Cluspack with all annotation values |
ImAnnoCluspackWithPattern | Runs Cluspack with the values taken from each line (and displays ImAnnoPatterns) |
StringInteractome | Runs StringInteractome on the list of genenames, probesets or NM. Addtag organism=Homo_sapiens if necessary (default is Mus_musculus) |
OmimGenemap | Displays the disease associated to human genes (from Genemap from Omim) |
MorbidMap | Displays the disease associated to human genes (from MorbidMap from Omim) |
MutDisease | Displays the mutations and disease associated to human genes |
Phenotype | Displays the phenotypes or functon of human genes |
ShowImAnno | Displays the ImAnno annotation values |
ShowMiniature | Shows ImAnno Genes Information with Miniatures |
ImAnnoImages | Displays the ImAnno images (Tip : you can add a tag show=name) |
ImAnnoPattern | Displays the ImAnno annotation values with colors |
ImAnnoPatternAddColumns | Displays the ImAnno annotation values with colors and adds the column 2, 3, 4 ... as other annotation values |
CorrelateColumn2with3 | Runs a correlation and displays the result as a diagram. Column 1 is genename. Important columns are 2 and 3 |
CytoTissues | Creates the input files allowing Cytoscape to create an interaction network between tissues |
RculProbs | Display the Rcul information of the probesets |
ListOfKN | Display all clusters with sizes |
CoCluOfK | Display all clusters Ki which have common probesets as Kx (Ki Kx nbKi nbKx nbKiKx %common/minimum) asking Kx at second position |
ProbsOfK | Displays the probesets of the clusters (Ki Px) asking Px is at second position |
ClustOfP | Displays the clusters of the probesets (Pi Kx) asking Kx is at second position |
SeeProbs | Removes the leading P then does the same as ShowProbesets |
SizesOfClusters | Displays all cluster sizes and their corresponding clusters |
UpdateFedlord | For management only. Update People data in the Fedlord Database with an other database (first run SynchronizePeople) |
FromFedlord | For management only. Update People data from the Fedlord Database to an other database (first run SynchronizePeople) |