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Hi lumpy team,
I have been working on running lumpy to call large structural variants. I have been running lumpy traditional where I generated insert size distributions following the below command.
samtools view -r readgroup1 sample.bam
| tail -n+100000
| scripts/pairend_distro.py
-r 101
-X 4
-N 10000
-o sample.lib1.histo
However, after this when I try running the lumpy , it shows me missing pair end parameters even after mentioning the parameters.
Could you please help? I am attaching the snippet of the code that I have written.
Looking forward to hearing from you
Thanks and regards,
Prachi
The text was updated successfully, but these errors were encountered:
Hi lumpy team,
I have been working on running lumpy to call large structural variants. I have been running lumpy traditional where I generated insert size distributions following the below command.
samtools view -r readgroup1 sample.bam
| tail -n+100000
| scripts/pairend_distro.py
-r 101
-X 4
-N 10000
-o sample.lib1.histo
However, after this when I try running the lumpy , it shows me missing pair end parameters even after mentioning the parameters.
Could you please help? I am attaching the snippet of the code that I have written.
Looking forward to hearing from you
Thanks and regards,
Prachi
The text was updated successfully, but these errors were encountered: