User: nalexandre

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nalexandre0
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Posts by nalexandre

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Comment: C: EOF Marker absent .bam.pbi files
... Even when I run the command with subreads.bam, subreads.bam.pbi, or subreads.bam.pbi.gz, I get the same errors. How would you suggest preparing raw data for polishing a completed genome? ...
written 7 days ago by nalexandre0
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Comment: C: EOF Marker absent .bam.pbi files
... Yes I do! I am just trying to polish my current genome assembly using arrow. I figured I needed to merge the bam files in order to do this sort of polishing. I was planning to index, align, and sort after merging before running arrow. ...
written 7 days ago by nalexandre0
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Comment: C: EOF Marker absent .bam.pbi files
... I used the gunzip command on all pbi files as the file type was gzip compressed data. ...
written 8 days ago by nalexandre0
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EOF Marker absent .bam.pbi files
... I received a series of subreads.bam.pbi files from my sequencing facility and I unzipped each file. When I try to samtools merge all of the files, I get an error message saying that the EOF marker is absent. I get the following additional message: [E::bgzf_read] Read block operation failed wi ...
assembly sequencing written 8 days ago by nalexandre0 • updated 7 days ago by RamRS22k

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