User: snstab

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snstab0
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Posts by snstab

<prev • 8 results • page 1 of 1 • next >
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Comment: C: remove Batch Effect between several **RNA-seq** studies (no replication)
... Thank you for your kindness in answering my questions. With respect ...
written 6 weeks ago by snstab0
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Comment: C: remove Batch Effect between several **RNA-seq** studies (no replication)
... Thank you very much for your comments. Do your answers mean that 1) Replication of samples in each study is not an important issue and without repeating the samples in each study, the batch effect between several studies can be corrected ? 2) Even with the counts or probabilities, can the batch be r ...
written 6 weeks ago by snstab0
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Comment: C: remove Batch Effect between several **RNA-seq** studies (no replication)
... yes it has information that the other studies dont have. this study has 2 samples(1 treat and 1 control) and these samples have no replication. and now my question is how to correct batch effects between studies that one of them has this situation. As far as I've seen and researched, in order to cor ...
written 6 weeks ago by snstab0
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Comment: C: remove Batch Effect between several **RNA-seq** studies (no replication)
... Hi. Thank you for your reply and comment. Incidentally, I was very keen on having p-value data on the path to meta-analysis, but unfortunately the Noi-seq output was probability and not p-value. So I had to use a Noi-seq because some of my studies were unreplicated. Eventually I had to keep up with ...
written 6 weeks ago by snstab0
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Comment: C: remove Batch Effect between several **RNA-seq** studies (no replication)
... Thanks for your reply. I want to remove Batch Effect between **several** RNA-seq studies that **one of them** has only Two samples. My question is, how do I combine this unreplicated study with other studies? I mean, how do I set a command for this situation?؟ ...
written 6 weeks ago by snstab0
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remove Batch Effect between several **RNA-seq** studies (no replication)
... Hi. How can I remove Batch Effect between several **RNA-seq** studies that have count data (**cpm**) available using **Combat**? The number of control and treatment samples varies between studies, and there is **no replication** in one study that has **only Two samples (one control sample and one t ...
rna-seq written 6 weeks ago by snstab0 • updated 6 weeks ago by ATpoint36k
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convert probability to p-value
... Hi. I'm going to convert the output of NOI-seq ( which is **probability**) to **p-value** ? I need to p-value for meta-analysis. What package or method do you recommend? Thank you for helping me ...
R rna-seq written 5 months ago by snstab0
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mapping and de novo assembly of plant without reference genome
... Hi I'm studying on a plant that has **no reference genome** and only has **one scaffold assembly** and **one gff3** annotation file. Can I create an index with the same assembly and gff3 in STAR and do the mapping? If I want to do **de novo assembly** using the **Galaxy** Can I import the links of ...
assembly rna-seq written 6 months ago by snstab0

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