User: morteza.mahmoudisaber

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Japan
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4 days, 9 hours ago
Joined:
5 years, 2 months ago
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"Strikings always evolving"

Posts by morteza.mahmoudisaber

<prev • 24 results • page 1 of 3 • next >
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Answer: A: PLINK: Change affection status
... You can simply use the following code to get plink bed files with new phenotype: plink --bfile PlinkBed --pheno replacementPhenotypes --make-bed --out PlinkBedWithPheno ...
written 5 weeks ago by morteza.mahmoudisaber70
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Answer: A: "Core Dumped" when using GEMMA for GWAS
... Actually in this case, segmentation fault is not due to memory error. BugWas uses GEMMA which accepts genotype and phenotype in BIMBAM format. For the phenotype it should be just one column without any headers, however, in the provided phenotype it is two columns with header. Delete the ID column a ...
written 8 weeks ago by morteza.mahmoudisaber70
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Answer: A: Installation of Chipster on linux platform [long post]
... I have also tried several ways to install it on virtualbox. But there is always some type of error. I doubt if anybody could install chipster properly on local machine recently! ...
written 2.1 years ago by morteza.mahmoudisaber70
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Answer: A: what is the difference between single end and paired end in sequencing
... This is short answer: https://www.youtube.com/watch?v=hRKes6_dv2k ...
written 2.2 years ago by morteza.mahmoudisaber70
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Comment: C: Gene regulatory network visualization and annotation
... @ spacemorrissey: Thank you. Reactome is exactly what I needed. ...
written 2.2 years ago by morteza.mahmoudisaber70
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Comment: C: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
... It would have been good if 'confirming an reply' was also possible as what there is in 'stackoverflow'. It saves the time for readers to find proper answers quickly. ...
written 2.2 years ago by morteza.mahmoudisaber70
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Gene regulatory network visualization and annotation
... Analyzing Microarray data, I obtained a group of deferentially expressed genes and now I want to identify the gene regulatory networks in which these genes are over-represented, visualize these networks and annotate the networks. As I searched, it seems that Cytoscape is the best software for this ...
visualization cytoscape gene regulatory network written 2.2 years ago by morteza.mahmoudisaber70 • updated 20 months ago by Biostar ♦♦ 20
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Comment: C: How to identify significant differentially expressed genes and gene regulatory n
... Hi Farbod San, Unfortunately we do not have access to GeneSpring at the moment. I will try the solutions suggested here. Thank you all. ...
written 2.3 years ago by morteza.mahmoudisaber70
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Comment: C: How to identify significant differentially expressed genes and gene regulatory n
... Hi Farbod, Thank you for the editing and answers. Actually your answer work perfectly for Affymetrix arrays. But I have used agilent microarray that is more comprehensive and accurate than affymetrix but seemingly less popular. ...
written 2.3 years ago by morteza.mahmoudisaber70
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Comment: C: How to identify significant differentially expressed genes and gene regulatory n
... Thank you @Wouter. This workflow is exactly what I need but the only problem is that it is just for Affymetrix array. I have used agilent microarray: "SurePrint G3 Human Gene Expression v3 8x60K Microarray " I found the package agilp for agilent but it has only the options of: AALoess Normali ...
written 2.3 years ago by morteza.mahmoudisaber70

Latest awards to morteza.mahmoudisaber

Great Question 5 months ago, created a question with more than 5,000 views. For Difference between various GRCH 37 releases?
Popular Question 5 months ago, created a question with more than 1,000 views. For Where to find RepBase database?
Popular Question 5 months ago, created a question with more than 1,000 views. For Gene regulatory network visualization and annotation
Popular Question 5 months ago, created a question with more than 1,000 views. For Where to find RepBase database?
Popular Question 14 months ago, created a question with more than 1,000 views. For Difference between various GRCH 37 releases?
Popular Question 20 months ago, created a question with more than 1,000 views. For Difference between various GRCH 37 releases?
Popular Question 23 months ago, created a question with more than 1,000 views. For Difference between various GRCH 37 releases?
Popular Question 2.9 years ago, created a question with more than 1,000 views. For difference between dash(-) and dot(.) in alignment representation
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Popular Question 3.2 years ago, created a question with more than 1,000 views. For Difference between various GRCH 37 releases?
Scholar 4.4 years ago, created an answer that has been accepted. For A: difference between dash(-) and dot(.) in alignment representation

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