User: mxlsherry1992

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Posts by mxlsherry1992

<prev • 59 results • page 1 of 6 • next >
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STAR mapping results
... Hi, I used STAR to map my RNA seq data to the genome, here is the output file for the mapping rate, but I had a hard time to understand it.. Started job on | Aug 09 16:35:19 Started mapping on | Aug 09 16:35:48 Finished o ...
rna-seq written 1 day ago by mxlsherry199230
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Comment: C: GO enrichment analysis
... Hi, Thans for reply..But if you know how could I covert file1 to the second format,, there is too much genes so it is impossible for me to do it one by one :( ...
written 22 days ago by mxlsherry199230
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GO enrichment analysis
... Dear all, I want to do a GO enrichment analysis for some of genes, I used the KOBAS to do that, and here is part of the output `file1`: GO:0022839 5.51E-55 1.69E-51 TRINITY_DN54568_c0_g1_i1 TRINITY_DN130760_c2_g2_i8 TRINITY_DN130760_c2_g1_i1 GO:0005254 1.59E-48 2.43E-45 TRINITY_DN54568_c0_ ...
rna-seq written 23 days ago by mxlsherry199230
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Comment: C: awk extract certain line
... Hi all, it all worked, Thank you and have a great day!! ...
written 29 days ago by mxlsherry199230
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Comment: C: awk extract certain line
... Hi, I just used "command+c" and "command+v" to copy the data...It worked!! at first I copied directly from xlsx, now I paste it first to byword and then paste to txt file, then it worked!! Thank you!! ...
written 4 weeks ago by mxlsherry199230
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Comment: C: awk extract certain line
... Hi, thanks for your kindly reply! I am using MACbook, and the txt file is copied from xlsx file, if I will do anything to make it tab-delimited? ...
written 4 weeks ago by mxlsherry199230
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awk extract certain line
... Dear all, Assuming that I have 2 large files, file 1 looks like this: TRINITY_DN100000_c1_g1 TRINITY_DN100000_c1_g3 TRINITY_DN100000_c1_g6 TRINITY_DN100000_c2_g1 TRINITY_DN100001_c6_g1 TRINITY_DN100001_c6_g2 TRINITY_DN100006_c1_g1 TRINITY_DN100006_c6_g3 TRINITY_ ...
rna-seq written 4 weeks ago by mxlsherry199230
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Comment: C: RSEM_R differential expression and PCA plot
... Thanks for your kindly reply!! So it seems FPKM/FPM and log2foldchange value works for heatmap plotting..? I just copy and paste my results for different samples and input them to do heatmap is ok...?:) Thank you! ...
written 4 weeks ago by mxlsherry199230
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Comment: C: RSEM_R differential expression and PCA plot
... Hi, Thanks for the reply! so you means I can use the results of > RSEM.genes.results directly for PCA and heatmap? Here is part of the RSEM.genes.results, if I need to extracted one columns to do that? ( And I have 7 sample, 2 replicated, so I got 14 RSEM.genes.results files together, will w ...
written 4 weeks ago by mxlsherry199230
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RSEM_R differential expression and PCA plot
... Dear all, I have a species without reference genome, so I did the RNA-SEQ analysis using `" Trinity-align_and_estimate_abundance.pl -RSEM`" pipeline, and got two files: RSEM.isoforms.results RSEM.genes.results Then, I used `abundance_estimates_to_matrix.pl` and `run_DE_analysis.pl` to ...
rna-seq written 4 weeks ago by mxlsherry199230

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