User: mattia pelizzola

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Posts by mattia pelizzola

<prev • 26 results • page 2 of 3 • next >
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counting BAM reads in a set of genomic regions
... Hi everybody, given a BAM file and a set of genomic regions stored in a GRanges object, I would like to know your opinion/experience on the fastest (and memory parsimonious) way in BioC for counting the number of reads for each region. Thanks! mattia [[alternative HTML version deleted]] ...
written 6.8 years ago by mattia pelizzola200 • updated 6.8 years ago by Martin Morgan ♦♦ 24k
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Post-Doc - Milan: miRNAs and non-coding RNAs identification from RNAseq data
... *Post-Doc - Milan: miRNAs and non-coding RNAs identification from RNAseq data* A position in computational biology is available at the European Institute of Oncology (IEO). Our group is engaged in a number of projects in areas of cancer genomics, development and stem cells. These projects incl ...
sequencing rnaseq mirna cancer written 7.3 years ago by mattia pelizzola200
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[JOB] NGS and computational genomics postdoc positions
... Hi, several post-doctoral positions are available in the Computational Epigenomics unit at the Center for Genomic Science of IIT@SEMM ( http://genomics.iit.it/groups/computational-epigenomics.html), a new outstation of the Italian Institute of Technology located in the IFOM- IEO Campus in Milan (h ...
cancer written 7.4 years ago by mattia pelizzola200
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Computational Biologist position available in Screening Unit in Milan, Italy
... Computational Biologist position available in Screening Unit in Milan, Italy: http://www.iit.it/en/resources/openings/iit-centres/iitsemm /computational-biologist-semm.html IIT at SEMM is a research outstation of the Fondazione Istituto Italiano di Tecnologia located in Milan at the IFOM-IEO-CAMP ...
cancer written 8.1 years ago by mattia pelizzola200
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4 PhD positions in cancer computational biology
... Dear all,* * enrollment is open for 4 PhD positions in cancer computational biology at the IFOM-IEO campus in Milan, see the ad below. Best, mattia ** *############################# * * * *Cancer computational biology* Four PhD positions in Computational Biology are available at the I ...
sequencing epigenetics cancer written 8.2 years ago by mattia pelizzola200
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PhD program in Computational Biology in Milan, Italy
... *Applications are solicited for a PhD program in Computational Biology in Milan, Italy:* * * *Epigenome evolution in tumor models* (*Amati group, IIT & IEO*) Cancer originates from a complex combination of alterations at the level of the genome as well as of the epigenome. We are using next-ge ...
chipseq written 8.3 years ago by mattia pelizzola200
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occurrence of rGADEM motifs
... Hi, I am using rGADEM and MotIV to find out enriched motifs in my ChIPseq peaks and determine the similarity with Jaspar TFBS. These tools look very useful! rGADEM provides a list of enriched motifs. The total number of motifs is provided by the nOccurrences function, but I can't find a way to get ...
rgadem motiv written 8.3 years ago by mattia pelizzola200 • updated 8.3 years ago by Charles Joly Beauparlant160
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rtracklayer issues with other packages?
... Hi Martin, I am back on this rtracklayer issue after a while. There is a bug specifically when the package graph is loaded too (before or after rtracklayer). The code (apart from library(graph)) is from the rtracklayer vignette: > library(graph) > library(rtracklayer) Loading required packag ...
go cancer bsgenome graph biostrings gostats rtracklayer written 8.9 years ago by mattia pelizzola200 • updated 8.9 years ago by Michael Lawrence11k
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rtracklayer issues with other packages?
... Hi, I am running some code from the rtracklayer vignette. If I start a new R session and I load the rtracklayer only, the code works fine. Unfortunately, I need many other packages at the same time. For some reason when loading all the other packages I get this error: > data(targets) > targe ...
go bsgenome rtracklayer written 9.3 years ago by mattia pelizzola200 • updated 9.3 years ago by Martin Morgan ♦♦ 24k
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Comment: C: snow library, question on clusterExport
... thanks Martin for the explanations and thanks Norman for pointing out that error in the example, unfortunately I am still stuck with the main problem: I have to use clusterExport to export an object to the cluster nodes. clusterExport only seems to export objects from the GlobalEnv, unfortunately. ...
written 9.6 years ago by mattia pelizzola200

Latest awards to mattia pelizzola

Popular Question 11 months ago, created a question with more than 1,000 views. For snow library, question on clusterExport
Popular Question 11 months ago, created a question with more than 1,000 views. For [JOB] NGS and computational genomics postdoc positions
Popular Question 20 months ago, created a question with more than 1,000 views. For 4 PhD positions in cancer computational biology
Scholar 5.0 years ago, created an answer that has been accepted. For A: Problem with using `GRheatmapData` function in compEpiTools package

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