User: Irsan

gravatar for Irsan
Irsan7.2k
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Amsterdam
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3 weeks, 6 days ago
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8 years, 3 months ago
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PhD-student at Clinical Genetics, VU medical centre

Posts by Irsan

<prev • 499 results • page 1 of 50 • next >
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Comment: C: How to get transcripts lengths from RNAseq data to calculate TPM
... Please have a look at [this post][1] [1]: https://www.biostars.org/p/83901/ ...
written 3 months ago by Irsan7.2k
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Canu diploid assembly with nanopore reads
... I'd like to use the canu assembler to assembly my diploid organisms sequenced with MinION. Instead of smashing heterozygous sites to a single allele, I want canu to retain both alleles in the assembled sequenced. I am aware that I will therefore end up with a redundant assembly where each contig wil ...
assembly diploid canu written 3 months ago by Irsan7.2k • updated 3 months ago by Biostar ♦♦ 20
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Comment: C: How do you get input files to a cromwell server
... Hi Geraldine (I think??), How do I make the cromwell server machine recognize the client/submission machine's file system? For example, do you recommend to to make my data directory on the client shareable over the network (SMB/CIFS), or can I adapt the URI string in my input file to something that ...
written 8 months ago by Irsan7.2k
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How do you get input files to a cromwell server
... I make use of cromwell in server mode to execute bioinformatics data processing pipelines written in widdle (.wdl = workflow description language). The machine from which I submit workflows is not the same as the machine that hosts the cromwell server (so a remote cromwell server). The input files f ...
workflow cromwell widdle wdl written 8 months ago by Irsan7.2k • updated 8 months ago by vdauwera990
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Comment: C: Workshop: Data manipulation and visualization with Python (3 places left)
... From now, 2 places left! Just signed up for the course. Looks promising! ...
written 4.0 years ago by Irsan7.2k
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Comment: C: Fastq Convert To Fasta
... OK, I have changed fasta to fastq ...
written 4.2 years ago by Irsan7.2k
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Answer: A: Heatmap trouble in R
... Because it scales the data. Use the scale="none" option ...
written 4.3 years ago by Irsan7.2k
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Comment: C: Is microarray gene expression analysis is dead ?
... Oh yeah that's right, forgot about that... ...
written 4.3 years ago by Irsan7.2k
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Comment: C: How to draw lego plot Using Mutation Data (MAF format input)?
... I would advice against it. Becuase of the three dimensions, some bars can block others. ...
written 4.3 years ago by Irsan7.2k
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Answer: A: Is microarray gene expression analysis is dead ?
... In research, micro-arrays are on their return but in clinical diagnostics they are still used a lot, in particular array-CGH or SNP-arrays to determine germ line CNVs that predispose to disease. ...
written 4.3 years ago by Irsan7.2k

Latest awards to Irsan

Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: Titv Meaning
Scholar 12 weeks ago, created an answer that has been accepted. For A: Bedtools Genomecoveragebed Usage : How To do per base coverage analysis for only
Scholar 8 months ago, created an answer that has been accepted. For A: Bedtools Genomecoveragebed Usage : How To do per base coverage analysis for only
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Titv Meaning
Great Question 10 months ago, created a question with more than 5,000 views. For Disable Soft-Clipping Bwa Aln
Scholar 10 months ago, created an answer that has been accepted. For A: Bedtools Genomecoveragebed Usage : How To do per base coverage analysis for only
Popular Question 18 months ago, created a question with more than 1,000 views. For Cancer genomics journals
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Titv Meaning
Scholar 18 months ago, created an answer that has been accepted. For A: Why Cannot Limma Package Do Differential Expression Between Two Samples Without
Scholar 18 months ago, created an answer that has been accepted. For A: any tool or R package for integrated analysis of miRNA and mRNA expression data
Scholar 18 months ago, created an answer that has been accepted. For A: Method to detect gene co-expression of genomic feature in cell lineage
Scholar 18 months ago, created an answer that has been accepted. For A: Bedtools Genomecoveragebed Usage : How To do per base coverage analysis for only
Scholar 18 months ago, created an answer that has been accepted. For A: Best Way To Quantify Influence Of Different Covariates On Gene Expression?
Popular Question 21 months ago, created a question with more than 1,000 views. For Fastq Format Redundancy
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: Titv Meaning
Good Answer 3.0 years ago, created an answer that was upvoted at least 5 times. For A: Random Genomic Regions Of A Given Length Distribution
Good Answer 3.0 years ago, created an answer that was upvoted at least 5 times. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 3.0 years ago, created an answer that has been accepted. For A: Bedtools Genomecoveragebed Usage : How To do per base coverage analysis for only
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Cancer genomics journals
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Fastq Format Redundancy
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Fastq Format Redundancy
Good Answer 3.4 years ago, created an answer that was upvoted at least 5 times. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Appreciated 3.4 years ago, created a post with more than 5 votes. For C: Conditional Coloring Of Heatmaps
Appreciated 3.4 years ago, created a post with more than 5 votes. For C: Superimpose 2 Heatmaps

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