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shenlab-sinai / ngsplot

Quick mining and visualization of NGS data by integrating genomic databases
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ngs.plot.r #78

Open Liyi56 opened 6 years ago

Liyi56 commented 6 years ago

after install some packages, the information of error change to this, Using database: /share/workplace/home/stu_huiyanan/soft_python/ngsplot/database/IRGSP-1/IRGSP-1.ensembl.genebody.protein_coding.RData Done Loading R librariesWarning message: multiple methods tables found for ‘rep.int’ .....Done Analyze bam files and calculate coverage.Done Plotting figures...Error: object 'g.order' not found Execution halted

my command is # ngs.plot.r -G IRGSP-1 -R tss -C H2AZ-F1_R1.bam -O h2az.tss -T H2AZ -L 3000 -FL 300 I have a problem in run the ngs.plot.r. please save me！

sorrowripple commented 5 years ago

I suffered this question, too, but my reason is that I just provide one gene to plot. ngs.plot.r can't cluster using one gene, when I provide more genes, it run without error. and I think this error just influence the heatmap because my line plot is fine. Hope my experience can help you.

Liyi56 commented 5 years ago

very thanks for your valuable experience! Later, I choose another tools 'deeptools'.