I've got a FASTA file with headers that contain coverage information. The default RegEx used by MetaWatt to extract the coverage does not work properly Therefore I am now trying to find a new, working RegEx pattern.
I tried several different patterns. I used online RegEx builders/testers (e.g. https://regex101.com/) to check wether the pattern actually works. Patterns validated by regex101 would for some reason not work in MetaWatt. How am I now going to find a RegEx that works?
Ideally I would like to find the a working Regex patterns for the following type of headers:
CLC bio (example) >TruPE-73_S88_L001_R1_001_(paired)_trimmed_(paired)_contig_1 Average coverage: 30.02
Example RegEx: "[\d]+.[\d]+" (works on regex101, not in MetaWatt)
Dear Marc and Metawatt users,
I've got a FASTA file with headers that contain coverage information. The default RegEx used by MetaWatt to extract the coverage does not work properly Therefore I am now trying to find a new, working RegEx pattern.
I tried several different patterns. I used online RegEx builders/testers (e.g. https://regex101.com/) to check wether the pattern actually works. Patterns validated by regex101 would for some reason not work in MetaWatt. How am I now going to find a RegEx that works?
Ideally I would like to find the a working Regex patterns for the following type of headers:
CLC bio (example)
>TruPE-73_S88_L001_R1_001_(paired)_trimmed_(paired)_contig_1 Average coverage: 30.02Example RegEx: "[\d]+.[\d]+" (works on regex101, not in MetaWatt)
SPAdes (example)
>NODE_1_length_450972_cov_7.14856_ID_1Any help would be greatly appreciated.
Thanks!
Jeroen
Last edit: Anonymous 2015-11-24
This seems to work to grab a float out of the header...
([0-9]+)([.,]+[0-9]+)
Hi!
I was wondering whether this issue has been solved? I am having the same issues with regex.
Thanks!
Arthi