Hello Mr. Bernd, first of all I appreciate for the quick answer. Secondly I believe I wasn't very clear. I apologise. My main problem is that the timestamp and msisdn data are *index datasets (please check http://stackoverflow.com/questions/1686869/searching-a-hdf5-dataset <http: stackoverflow.com="" questions="" 1686869="" searching-a-hdf5-dataset="">) .* But I'm a bit puzzled about what field has the index so I can query my database (last line of the source code I sent). I mean if I select the timestamp index I don't understand in which h5i_dataset from the list below should I search for a reference to the records where I have this timestamp. /_i_events timestamp H5I_GROUP 13 /_i_events/timestamp abounds H5I_DATASET STRING 105408 14 /_i_events/timestamp bounds H5I_DATASET STRING 287 x 366 15 /_i_events/timestamp indices H5I_DATASET INTEGER 4718592 x 366 16 /_i_events/timestamp indicesLR H5I_DATASET INTEGER 4718592 17 /_i_events/timestamp mbounds H5I_DATASET STRING 105408 18 /_i_events/timestamp mranges H5I_DATASET STRING 366 19 /_i_events/timestamp ranges H5I_DATASET STRING 2 x 366 20 /_i_events/timestamp sorted H5I_DATASET STRING 4718592 x 366 21 /_i_events/timestamp sortedLR H5I_DATASET STRING 4718881 22 /_i_events/timestamp zbounds H5I_DATASET STRING 105408 After having the selected data I believe I would be able to go to the events database and return the record with the data I need. Best regards, Maria Pedroto On Wed, Apr 2, 2014 at 7:10 PM, Bernd Fischer <bernd.fischer@embl.de> wrote: > Dear Maria! > > You can access the different datasets in you HDF5 file by > > > A = h5read(file=filename, name="/_i_events/timestamp/abounds") > > A > > Or you can access a subset (e.g. elements 101 to 110) of a dataset by > > > A = h5read(file=filename, name="/_i_events/timestamp/abounds", > index=list(101:110)) > > A > > Or a subset of columns from a two dimensional dataset by > > > B = h5read(file=filename, name="/_i_events/timestamp/bounds", > index=list(,101:110)) > > B > > or a subset of rows and columns by > > > B = h5read(file=filename, name="/_i_events/timestamp/bounds", > index=list(20:25,101:110)) > > B > > If you what to know the content of a dataset (e.g. " > /_i_events/timestamp/indices") means, > you may ask the data provider of the HDF5 file to describe you the file > format in detail. > > rhdf5 provides you with methods to read a dataset, but not to interpret > its content. > > Bernd > > > On 02.04.2014, at 16:58, Maria Pedroto <maria.pedroto@gmail.com> wrote: > > > Hello, > > I'm trying to use the rhdf5 package to read and iterate in a hdf5 > database. > > The structure of the database is as follows: > > > > » h5ls(filename, datasetinfo=TRUE) > > group name otype dclass dim > > 0 / _i_events H5I_GROUP > > 1 /_i_events msisdn H5I_GROUP > > 2 /_i_events/msisdn abounds H5I_DATASET INTEGER 105408 > > 3 /_i_events/msisdn bounds H5I_DATASET INTEGER 287 x 366 > > 4 /_i_events/msisdn indices H5I_DATASET INTEGER 4718592 x 366 > > 5 /_i_events/msisdn indicesLR H5I_DATASET INTEGER 4718592 > > 6 /_i_events/msisdn mbounds H5I_DATASET INTEGER 105408 > > 7 /_i_events/msisdn mranges H5I_DATASET INTEGER 366 > > 8 /_i_events/msisdn ranges H5I_DATASET INTEGER 2 x 366 > > 9 /_i_events/msisdn sorted H5I_DATASET INTEGER 4718592 x 366 > > 10 /_i_events/msisdn sortedLR H5I_DATASET INTEGER 4718881 > > 11 /_i_events/msisdn zbounds H5I_DATASET INTEGER 105408 > > 12 /_i_events timestamp H5I_GROUP > > 13 /_i_events/timestamp abounds H5I_DATASET STRING 105408 > > 14 /_i_events/timestamp bounds H5I_DATASET STRING 287 x 366 > > 15 /_i_events/timestamp indices H5I_DATASET INTEGER 4718592 x 366 > > 16 /_i_events/timestamp indicesLR H5I_DATASET INTEGER 4718592 > > 17 /_i_events/timestamp mbounds H5I_DATASET STRING 105408 > > 18 /_i_events/timestamp mranges H5I_DATASET STRING 366 > > 19 /_i_events/timestamp ranges H5I_DATASET STRING 2 x 366 > > 20 /_i_events/timestamp sorted H5I_DATASET STRING 4718592 x 366 > > 21 /_i_events/timestamp sortedLR H5I_DATASET STRING 4718881 > > 22 /_i_events/timestamp zbounds H5I_DATASET STRING 105408 > > 23 / events H5I_DATASET COMPOUND 1729572595. > > > > I'm not being able to find out how to use the indexes to find the > > information I need. That is, I think i need to access the timestamp index > > and return a value to be inserted in the h5read function at the index > > field. > > > > Dunnow if i'm using the best function because I haven't found on the web > an > > example so complicated. > > > > Best regards, > > Maria Pedroto > > > > [[alternative HTML version deleted]] > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@r-project.org > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > > [[alternative HTML version deleted]]