-
Hi,
DeepLC enjoys a good reputation which is why I'd like to use it to predict retention times of peptides with with a specific gradient. Unfortunately I cannot provide calibration peptides with th…
-
See https://github.com/levitsky/pyteomics/issues/128
Maybe a fall-back option would be a good idea, since deeplc, ms2pip and ms2rescore are not working, when Unimod is down
-
https://github.com/compomics/DeepLC/issues/19 has been fixed, so the following lines can be removed:
https://github.com/compomics/ms2rescore/blob/2699c1f6691c7c2c6ceb056155a7a5442dd0c4f3/ms2rescore…
RalfG updated
9 months ago
-
I am running MSGF+ using command:
java -Xmx32g -jar MSGFPlus.jar -s Yeast_trypsin.mgf -d database.fasta -tda 1 -ti 0,2 -minLength 7 -maxLength 50 -mod Mods.txt -o Yeast_trypsin.mzid -addFeatures 1
…
-
Selenocysteine (symbol Sec or U) is encoded in the human proteome in 72 instances. Selenocysteine is an analogue of the more common cysteine with selenium in place of the sulfur. Sec reacts like Cys w…
-
Thanks for the great tool!
I ran today in this issue
File "/usr/local/lib/python3.10/site-packages/pyteomics/proforma.py", line 299, in database
self._database = self.load_database()
…
-
Hello,When using version 2.2.3 of deeplc gui, the following problems occurred:
Traceback (most recent call last):
File "deeplc\gui.py", line 38, in
start_gui()
File "gooey\python_bindin…
-
Hello! I would like to ask if you are planning to make a Proteome Discoverer node for you tool. It would be very usefull for our facility and I think that for the entire community. Thanks!
-
Hi again,
I've noticed that latest versions of DeepLC (2+) does not use argument batch_num anymore (Or did I read the code wrong?). That leads to GPU memory errors when DeepLC is used to predict RT…
-
Hello,
I tried to install and run ms2rescore together with percolator on a peptideshaker output.
I used conda environment and installed percolator using conda and ms2rescore using pip.
When I cal…