User: sabaghianamir70

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New User
Location:
iran
Last seen:
2 months, 3 weeks ago
Joined:
1 year, 10 months ago
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Phd student in molecular medicine

Posts by sabaghianamir70

<prev • 76 results • page 2 of 8 • next >
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Comment: C: issue for doing an small rna seq analyzing
... Do you approve this method ? https://www.biostars.org/p/414790/#414823 (benformatics said) ...
written 9 months ago by sabaghianamir7010
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Comment: C: issue for doing an small rna seq analyzing
... I did that said, it seems everything is fine, So @ATpoint and @genomax, Do you approve this method ? ...
written 9 months ago by sabaghianamir7010
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Comment: C: issue for doing an small rna seq analyzing
... Im using bowtie2, also i can use RNA STAR(which is not preferable), and Hisat2. i cant use bowtie v1. is there any other tool which i can use ? in Bowtie2, i did convert to RNA but still no result. ...
written 9 months ago by sabaghianamir7010
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Comment: C: issue for doing an small rna seq analyzing
... Thanks, I am converting them right now, A side question, So i didnt use Mature MiRNA anywhere. Where we should use mature mirna /? ...
written 9 months ago by sabaghianamir7010
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issue for doing an small rna seq analyzing
... Hello and merry Christmas I having trouble for doing an small RNA-seq analyzing So, i align my data with rRNA reference which i downloaded from BioMART.(with Bowtie2) and then took the unaligned reads and map them to my hairpin reference which i downloaded from MirBase(with Bowtie2) and finally ge ...
rna-seq written 9 months ago by sabaghianamir7010 • updated 8 months ago by Biostar ♦♦ 20
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Comment: C: Quality and length trimming for de novo assembly of RNAseq
... My best suggestion is first trim the adapters then use FastQC to look it after excluding the adapters, If the main things like sequence length and and Sequence quality score and N content were fine, you can proceed your analyze. Dont try to Trim too much your data because you will have the false and ...
written 9 months ago by sabaghianamir7010
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what option should i use for show me result which i can filter my data by their p-value and FC?
... Hello I used MASIGPRO for time course differential analysis, and ive got some plots and tables, But i to extract most Differentiated genes form it, and i need some table with FC and p-value column. So what type of option should i use for this ? should i change some thing in Cluster Method(Hclust, ...
time course masigpro rna-seq written 9 months ago by sabaghianamir7010
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Comment: C: Is this workflow for Mir-seq data correct ?
... yes, Human reference genome. and another thing is, in bowtie should i use mirbase gff file(hsa) instead of Ucsc gff file, which i download from UCSC website ? ...
written 9 months ago by sabaghianamir7010
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Comment: C: Is this workflow for Mir-seq data correct ?
... So why in every workflow i look they use collapse, i dont understand. and instead of feacurecount, you suggest using HT-seq ? ...
written 10 months ago by sabaghianamir7010
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Is this workflow for Mir-seq data correct ?
... Hi I have small RNA-seq data and i have a workflow for analyzing it, any suggestion about it or its fine to work with. Trim Galore > Collapse > RNA STAR > FeatureCount > Limma-voom ...
mir-seq rna-seq written 10 months ago by sabaghianamir7010 • updated 9 months ago by Biostar ♦♦ 20

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