User: mgdrnl
mgdrnl • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Barcelona
- Website:
- https://github.com/mac...
- Last seen:
- 2 months, 2 weeks ago
- Joined:
- 3 years, 10 months ago
- Email:
- m*****@gmail.com
Bioinformatician in Institut Hospital del Mar d'Investigacions Mèdiques IMIM
Posts by mgdrnl
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... Dear All
We recently had a Quality Control issue when sequencing RNAseq with polyA capture in Illumina NextSeq. The reads were paired-end (2x75bp) and we found a proportion between 6%-9% of 35nt length reads with all N bases. It is also surprising that those reads all belong to the R1 reads of the ...
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... Dear all
I am working in a microarray core facility and we realized that the “Signal Space Transformation” (SST-RMA) normalization method, implemented in the Expression Console software, improves the fold-change of the arrays (higher range of fold change) when compared to conventional normalization ...
written 2.2 years ago by
mgdrnl • 10
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... Thanks! I will definitely try ArrayExpress next time. ...
written 2.3 years ago by
mgdrnl • 10
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... Thank you very much for the recommendation! the truth is I didn't know about SRA. Unfortunately the journal I am submitting the paper asks me to deposit the data (raw data, fastq files) to GEO or ArrayExpress. I will try with ArrayExpress next time, as someone above said it is better.. unless the jo ...
written 2.3 years ago by
mgdrnl • 10
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... I open this question because I didn't find much information about this topic so far. I am trying to upload data from a RNA-seq project to GEO (387,5GB) with UNIX command line and I am getting the error:
Lost data connection to remote host after 1xxxxxxxx bytes had been sent: Broken pipe.
The ...
written 2.3 years ago by
mgdrnl • 10
• updated
2.3 years ago by
Arup Ghosh ♦ 2.7k
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... Thank you very much for opening the question and for the bash script!
I had the same problem when uploading RNA-seq data to GEO. The connection broke several times and it was hard to submit all the fastq files. However, with your script it is working fine for the moment and I am not getting the er ...
written 2.3 years ago by
mgdrnl • 10
Latest awards to mgdrnl
Popular Question
22 months ago,
created a question with more than 1,000 views.
For There is any package for sst-RMA normalization in R?
Popular Question
22 months ago,
created a question with more than 1,000 views.
For Submit High-Throughput data to GEO. Problems with FTP connection
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2.3 years ago,
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