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AbateLab / SiC-seq

Scripts used in the 2017 SiC-seq paper
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barcodeCleanup.py #2

Open jrede opened 4 years ago

jrede commented 4 years ago

Hi @bdemaree,

I am really excited about this method and I hope to incorporate it into my own research. I am trying to recreate your work so I can see whether my aims are doable, but I'm having trouble getting past the first step! Whenever I attempt to run the barcode cleanup script, I get this message - 'barcodeCleanup.py: error: too few arguments.' Thank you for any help!

python2 SiC-seq_repository/barcodeCleanup.py --SE \
-R1 10_cell_sicseq_R1.fastq.gz \
-RI 10_cell_sicseq_RI.fastq.gz \
-align Y \
-bt2 ZymoBIOMICS_std_bowtie2_index/ZymoBIOMICS_std_ref
jrede commented 4 years ago

Fixed, must include a label, and must not be gzipped.