Question: Find exogenous sequences like EGFP in RNA-seq data
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whiter • 0 wrote:
Hi,
I am mapping some data from EGFP+ and EGFP- samples. I want to confirm that they are what I think they are by making sure they do or do not have GFP reads.
I tried making a custom genome containing only EGFP and mapping against that using "custom builds" but got the error below. But this might not even be the best way, so any ideas are appreciated.
Traceback (most recent call last):
File "/galaxy-repl/main/server/lib/galaxy/datatypes/converters/fasta_to_len.py", line 52, in <module>
compute_fasta_length( sys.argv[1], sys.argv[2], sys.argv[3], True )
File "/galaxy-repl/main/server/lib/galaxy/datatypes/converters/fasta_to_len.py", line 47, in compute_fasta_length
fasta_title = fasta_title.split()[0]
IndexError: list index out of range
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modified 4.0 years ago
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Jennifer Hillman Jackson ♦ 25k
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written
4.0 years ago by
whiter • 0
