User: Ramiro Magno

gravatar for Ramiro Magno
Ramiro Magno100
Reputation:
100
Status:
Trusted
Location:
CBMR, Faro, Portugal
Last seen:
5 months, 2 weeks ago
Joined:
2 years, 9 months ago
Email:
r***********@gmail.com

Posts by Ramiro Magno

<prev • 19 results • page 1 of 2 • next >
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Comment: C: Software package for RNA-seq reads simulation?
... Hi Gordon, Thank you for suggestion! I am going to have a look at it. ...
written 5 months ago by Ramiro Magno100
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Comment: C: Software package for RNA-seq reads simulation?
... I had a wrong idea about polyester. It seems quite interesting actually. Thank you for the suggestion! ...
written 5 months ago by Ramiro Magno100
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Comment: C: Software package for RNA-seq reads simulation?
... I was under the impression that polyester was for generating read counts only but not the read sequences themselves. I will have a closer look. ...
written 5 months ago by Ramiro Magno100
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Software package for RNA-seq reads simulation?
... Hi All, Do you know of a software package to generate simulated data of RNA-seq reads? And I mean the reads themselves, not read counts. My goal is to do some benchmarking on RNA-seq methods. Quick google-fu found me rlsim: https://www.ebi.ac.uk/goldman-srv/rlsim/. But the latest version of rlsim ...
reads rna-seq written 5 months ago by Ramiro Magno100 • updated 5 months ago by Gordon Smyth39k
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Recommendation for visualizing ChIP-qPCR data?
... Just looking for an R package(s) that I could use to wrangle ChIP-qPCR data and then show it along genomic tracks? Maybe use the general-purpose ggbio? Or is there something tailored to visualizing tracks related with chromatin accessibility / epigenetic status? ...
ggbio R chip-seq histone chip-seq written 11 months ago by Ramiro Magno100
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Comment: C: ensembldb error/bug: Can't locate Bio/EnsEMBL/ApiVersion.pm in @INC | fetchTable
... May the Force be with you. ...
written 19 months ago by Ramiro Magno100
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Comment: C: ensembldb error/bug: Can't locate Bio/EnsEMBL/ApiVersion.pm in @INC | fetchTable
... Johannes: Thank you! Just to have an idea, how long is quite long? ...
written 19 months ago by Ramiro Magno100
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ensembldb error/bug: Can't locate Bio/EnsEMBL/ApiVersion.pm in @INC | fetchTablesFromEnsembl
... Hi I am trying to generate an Ensembl version 92 annotation package using the function fetchTablesFromEnsembl from the ensembldb package: fetchTablesFromEnsembl(92, species = "human") but I get this error related to missing Perl modules: Empty compile time value given to use lib at /home/rmagn ...
ensembldb written 19 months ago by Ramiro Magno100 • updated 19 months ago by Johannes Rainer1.5k
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Comment: C: How to construct an up-to-date and annotation-rich RangeSummarizedExperiment obj
... Thank you for your answer Sean. Do you see any problem in using this approach: 1. Fetch the EST sequences corresponding to the microarray probe IDs using genbankr pkg? 2. Use gmapR pkg and the human genome BSgenome.Hsapiens.NCBI.GRCh38 to map the sequences. 3. Convert the `GAlignments` objects o ...
written 2.0 years ago by Ramiro Magno100
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Comment: C: update TCGAbiolinks to version 3.6 and GDCquery doesn't work
... could this be a duplicate? https://support.bioconductor.org/p/102119/ ...
written 2.0 years ago by Ramiro Magno100

Latest awards to Ramiro Magno

Popular Question 11 months ago, created a question with more than 1,000 views. For [FIXED] Error in Gviz (actually, rtracklayer) | IdeogramTrack
Scholar 2.7 years ago, created an answer that has been accepted. For A: maftools: Error in validateMaf(maf = maf, isTCGA = isTCGA, rdup = removeDuplicat
Popular Question 2.7 years ago, created a question with more than 1,000 views. For [FIXED] Error in Gviz (actually, rtracklayer) | IdeogramTrack
Good Question 2.7 years ago, asked a question that was upvoted at least 5 times. For [FIXED] Error in Gviz (actually, rtracklayer) | IdeogramTrack
Appreciated 2.7 years ago, created a post with more than 5 votes. For Error in Gviz | IdeogramTrack
Student 2.7 years ago, asked a question with at least 3 up-votes. For Error in Gviz | IdeogramTrack

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