User: english.server

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Posts by english.server

<prev • 77 results • page 2 of 8 • next >
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Comment: C: WGCNA categorical trait with more than 2 levels.
... Thank you for your excellent link. ...
written 7 months ago by english.server160
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Comment: C: Real-valued HTseq count to DESeq2
... Yes that was me. Thank you for your time and confirming on the matter. ...
written 7 months ago by english.server160
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Real-valued HTseq count to DESeq2
... HI! In order to input non-integer values to DESEQ2, the thread at [https://support.bioconductor.org/p/105964/][1] suggests that one rounds the values. I am not much familiar with RNA-seq analysis pipelines but I suppose HT-seq count should give integers as row counts or as I saw somewhere at bios ...
htseq deseq2 written 7 months ago by english.server160 • updated 7 months ago by Kevin Blighe53k
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Comment: C: Differentially expressed genes from expression table (RNAseq)
... Thank you for your response. Is salmon/tximport able to analyze human RNA-seq data on a 4G ram laptop? ...
written 7 months ago by english.server160
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Comment: C: Differentially expressed genes from expression table (RNAseq)
... Thanks for your time and response. Raw data is available in my case (from SRA) but I dont know how to analyze that. ...
written 8 months ago by english.server160
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Comment: C: Differentially expressed genes from expression table (RNAseq)
... Thank you fo your respoonse. Is there a "preferred" method of obtaining DEGs in data that are normalised+transformed? ...
written 8 months ago by english.server160
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Comment: C: Differentially expressed genes from expression table (RNAseq)
... Thank you for your response. Firstly, I did not cover all columns of data in my original post. The column headings (12 total) go as follow: WT_M_6GCCAATL007SAll_PE WT_M_5ACAGTGL007SAll_PE WT_M_10TAGCTTL007SAll_PE WT_F_8ACTTGAL007SAll_PE WT_F_7CAGATCL007SAll_PE WT_F_2CGATGTL0 ...
written 8 months ago by english.server160 • updated 8 months ago by Kevin Blighe53k
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Differentially expressed genes from expression table (RNAseq)
... I am learning to analyze RNA-seq at GEO. I am aware that raw counts can be processed by EdgeR or DESeq2 to obtain DEGS. However, while looking at the supplementary data for GSE130883 I found an expression table that looks like: ID e1 e2 e3 ENSMU ...
geo deg expression table rna-seq written 8 months ago by english.server160 • updated 8 months ago by ATpoint28k
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Comment: C: Learning basics of machine learning
... Hello ATpoint! While I was trying to learn from https://statcompute.wordpress.com/about/ , I came across this file. A goolge search brought up 248 results that had used this particular dataset, so i thought it might be a routine dataset. I searched UCI machine learning repository and did not found ...
written 8 months ago by english.server160
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Comment: C: where can one get all genes affected by a transcription factor?
... Thank you very much @genomax ...
written 8 months ago by english.server160

Latest awards to english.server

Student 11 months ago, asked a question with at least 3 up-votes. For Predicting new values from a model.
Supporter 15 months ago, voted at least 25 times.
Scholar 20 months ago, created an answer that has been accepted. For A: Tophat's Mean Inner Distance between Mate Pairs
Popular Question 21 months ago, created a question with more than 1,000 views. For Are the values in geo .soft files log2 transformed or normalized?
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Tophat's Mean Inner Distance between Mate Pairs
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Analyze RNA-data directly from SRA database and through Galaxy web tool

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