User: mikefeixu

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mikefeixu10
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3 days, 20 hours ago
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2 months, 3 weeks ago
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Bioinformatics Analyst

Posts by mikefeixu

<prev • 6 results • page 1 of 1 • next >
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Comment: C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... Thank you so much for the great idea! I actually had the issue in mapping the log files with each samples when I had large number of samples. The according improvements will be made by separating the files into each sample directories. In this way, each log filename reflects sample name. ...
written 15 days ago by mikefeixu10
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Comment: C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... Thank you so much for your patience. The FASTQ files are too big to share. I just added the counts file instead. My purpose is to make the code independent of any project. Users need to provide their own FASTQ files and sample names in the sample_list.txt. It wasn't using coincidence as a dependency ...
written 15 days ago by mikefeixu10
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Comment: C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... Would you minding trying again? ...
written 15 days ago by mikefeixu10
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Comment: C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... Thank you very much for the feedback. I just updated the github repository, cleaned up a bit per your feedback. Would you mind letting me know if any improvements those I can make? ...
written 15 days ago by mikefeixu10
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Comment: C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... The pipeline in the github gives the code for RNA-Seq anaysis from scratch in processing rawdata to data visualization in paper ready heatmaps. It might be helpful for beginners who wants to try Tophat and STAR in their RNA-Seq analysis. The Tophat pipeline takes 8~12 hours for each sample, while t ...
written 15 days ago by mikefeixu10
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Forum: NGS RNA-Seq Analysis Pipeline Tophat vs STAR
... It appears STAR is 2X faster than Tophat. Code and examples are available on Github: https://github.com/mikefeixu/RNA-Seq ...
forum tool rna-seq written 15 days ago by mikefeixu10 • updated 7 days ago by gak640130

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