User: raffaele calogero

Reputation:
500
Status:
Trusted
Location:
Italy/Turin/University of Torino
Website:
http://www.bioinformat...
Twitter:
@kendomaniac
Last seen:
1 year, 11 months ago
Joined:
14 years, 6 months ago
Email:
r****************@unito.it

Raffaele Calogero became associated professor of Molecular Biology at the University of Naples in 1992, after three years as fellow at Max Planck Institute (Berlin, DE) and five years as R&D researcher at Sorin Biomedica SpA (Saluggia, I). He started his activity in the area of bioinformatics in 1997 creating the Bioinformatics and Genomic unit (B&Gu). In 1998 he moved to Torino University where he consolidated the structure of B&Gu, which is now an interdisciplinary group devoted to the study of complex diseases by mean of high-throughput transcriptomics/genomics data analysis and mining. B&Gu acts tightly in contact with the System Biology group at Computer Science Dept. of University of Torino. B&Gu has wide network of interactions with Academia and industries in Italy and all over the world. Bioinformatics formation of biologists is one of the objectives of Raffaele Calogero which organizes and run bioinformatics courses since 2002. The courses were initially focused on Affymetrix technology (2002 – 2011) and now they are mainly based on RNAseq data analysis (2012-present).

Posts by raffaele calogero

<prev • 56 results • page 1 of 6 • next >
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Answer: A: Problem with prettyPrint (Chimera)
... Hi Anders, I will check the problem on thenext days Cheers Ra Prof. Raffaele A Calogero Tel +39 3333827080 Email raffaele.calogero@unito.it raffaele.calogero@gmail.com Sent from my iPhone On 27 Feb 2017, at 14:18, anders [bioc] <noreply@bioconductor.org> wrote: Activity on a post you are f ...
written 8 months ago by raffaele calogero500
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Answer: A: chimera error after update to R 3.2
... Hi Inge, in my hand the example shown in vignette works: tmp <- importFusionData("fusionmap", paste(find.package(package="chimera"),"/examples/mcf7.FMFusionReport", sep=""), org="hg19") length(tmp) [1] 13 > tmp[[1]] An object of class "fSet" Slot "fusionInfo": $fusionTool [1] "FusionMap" ...
written 23 months ago by raffaele calogero500
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Answer: A: problem with oneChannelGUI
... Sorry I forgot to tell you that it is better to update R to the latest version, i.e. 3.2.2 Cheers Raf ...
written 2.1 years ago by raffaele calogero500
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Answer: A: problem with oneChannelGUI
... Dear Anna, It seems to me a problem due to the presence of space in the path where R is installed: C:/Program Files/R/R-3.1.2/library/oneChannelGUI/affylibs You need to locate R in a path without spaces as for example: C:/R/R-3.1.2/ Let me know if you need further help Cheers Raf ...
written 2.1 years ago by raffaele calogero500
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Comment: C: chimera error after update to R 3.2
... HI Kelly, could please share with me your data set to reproduce the error? Cheers Raffaele P..s can you please  put it in a shared dropbox or send by email to  raffaele.calogero@unito.it   ...
written 2.4 years ago by raffaele calogero500
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Answer: A: Single end STAR Chimeric.out.junction fails to read with chimera::importFusionDa
... Hi, we committed  to the Bioconductor repository chimera 1.8.5. We think we fixed the issue encountered importing STAR data. It should be available for downloading in 24 hours Cheers Raf ...
written 2.8 years ago by raffaele calogero500
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Answer: A: Single end STAR Chimeric.out.junction fails to read with chimera::importFusionDa
... Hi Wolfgang, you are the second person that highlight this problem in uploading STAR data in chimera. We have identified the problem in the C++ parser that counts the reads in the Chimeric.out.junction file and we are going to fix it by next week in version 1.8.5. Thanks for highlighting the prob ...
written 2.8 years ago by raffaele calogero500
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News: RNAseq data analysis courses: Torino (Italy) : Beginner course March 17-19 2015 & Advance Course April 14-16 2015
... The Bioinformatics and Genomics unit, also this year we are repeating two RNAseq data analysis courses. Previous editions were very successful with people coming from various part of Europe, USA and Australia. The courses combine lessons and hands-on training and they are particularly suitable fo ...
rnaseq mirna onechannelgui chimera news written 2.9 years ago by raffaele calogero500
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An introductory course to RNA-seq at MBC Via Nizza 52, Torino, Italy, 25-27 March 2014
... Bioinformatics and Genomics unit @ Molecular Biotecnology Center, Torino (Italy) is pleased to announce the 3rd edition of the Introductory hands-on course on RNAseq (25-27 March 2014). This course is organized by B&Gu with guest speakers from Illumina and Singapore Immunology Network . The co ...
rnaseq written 3.9 years ago by raffaele calogero500
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Comment: C: Extracting protein sequence associated to UCSC transcript id
... Dear Michael and Herv?, many thanks for the great help I followed the suggestion of Herv? Since I need to retrieve only two sequences I did the following ... txdb <- TxDb.Hsapiens.UCSC.hg19.knownGene cds_by_tx <- cdsBy(txdb, by="tx", use.names=TRUE) trs <- c(id1,id2) if(length(which(trs %in ...
written 3.9 years ago by raffaele calogero500

Latest awards to raffaele calogero

Scholar 2.8 years ago, created an answer that has been accepted. For A: Single end STAR Chimeric.out.junction fails to read with chimera::importFusionDa
Autobiographer 3.0 years ago, has more than 80 characters in the information field of the user's profile.

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