## User: Jonathan Griffiths

Reputation:
30
Status:
New User
Location:
Cambridge UK
omnislip
Scholar ID:
Last seen:
1 week, 1 day ago
Joined:
1 month, 1 week ago
Email:
j********************@gmail.com

#### Posts by Jonathan Griffiths

<prev • 6 results • page 1 of 1 • next >
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... Are the UMI and cell barcodes are the same between the 5' library and 3' library, and they are stored in the same way in the molecule_info file? Or did you institute some sort of 10X version check? This will have obvious implications for whether swappedDrops is easily able to detect that you are t ...
written 22 days ago by Jonathan Griffiths30
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... Hi Joon, Can you provide some more information about how you ran swappedDrops (e.g., locally or on a compute cluster), and whether there was an error message that was reported? Loading in very many unfiltered matrices from CellRanger should be quite tough on your RAM. Are you running in an environ ...
written 26 days ago by Jonathan Griffiths30
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... Indeed, regenerating my index fixed this (though there was no apparent error while it was being made). Thanks for the clarity here! ...
written 5 weeks ago by Jonathan Griffiths30
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... Hello, I was mapping some poorly annotated RNA-seq data using subread and incorrectly understood it to be paired end data. Supplying the fastq files as PE reads to subread-align caused a near-instant segfault. Should it provide a clearer error message? I can supply some offending files if you l ...
written 5 weeks ago by Jonathan Griffiths30 • updated 5 weeks ago by Gordon Smyth37k
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... double post, oops... ...
written 5 weeks ago by Jonathan Griffiths30
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... I have recently been through this for a set of many 10X samples (what I ended up doing is [shown here][1]) In essence, I first calculated the scores and called doublets within samples, then performed another round of calling across all samples to identify where I had missed calls in individual samp ...
written 5 weeks ago by Jonathan Griffiths30

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