User: dongchenchen

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dongchenchen30
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Posts by dongchenchen

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Comment: C: How to generate KEGG pathway classification chart
... Yes. I was able to generate the graph live above. For the plotting part, Excel is enough. ggplot for R or Matplotlib for Python would do fair job as well. My initial difficulty was to prepare data ready to generate graph from the raw annotation exported from KEGG website. I wrote a python script to ...
written 4 weeks ago by dongchenchen30
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Comment: A: bowtie2 piped to samtools created many samtools.tmp.bam files, how to get the si
... I have figured out. Thank you. ...
written 23 months ago by dongchenchen30
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bowtie2 piped to samtools created many samtools.tmp.bam files, how to get the single .bam file?
... Hi, I am doing a RNA-Seq analysis and want to map my reads back to the assembly I got from Trinity. Below are my commands. I was hoping to get a single output file named low1.bam. Instead I got a lot of tmp files named like below: samtools.40306.3656.tmp.0000.bam, samtools.40306.3656.tmp.0001.bam . ...
bowtie2 alignment samtools sort written 23 months ago by dongchenchen30 • updated 23 months ago by h.mon32k
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How to generate KEGG pathway classification chart
... I have assigned KO numbers to my assembled transcriptome and would like to generate a KEGG pathway classification with x axis show gene numbers and percentage for each different terms. There seems exist a standard format for the chart that people use for publication. I would like to know the tool th ...
kegg rna-seq written 24 months ago by dongchenchen30 • updated 9 days ago by Leite1.1k

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Popular Question 21 months ago, created a question with more than 1,000 views. For How to generate KEGG pathway classification chart

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