[3dem] PySeg Tutorial
Antonio Martínez Sánchez
martinez at biochem.mpg.de
Fri Feb 21 02:21:54 PST 2020
Dear 3DEM community
I'm writing you here to announce that PySeg software (Nature Methods
17:206-219(2020); https://doi.org/10.1038/s41592-019-0675-5) has also
been released through GitHub https://github.com/anmartinezs/pyseg_system.git
PySeg is a software for template-free detection and classification of
membrane associated complexes in cryo-ET, which can handle with in situ
structural heterogeneity. PySeg is a powerful but sophisticated tool
(open-source python package + scripts), and under our experience the
only way to go for de novo approaches on sparsely distributed membrane
proteins.
As a new feature you can find a tutorial in
https://github.com/anmartinezs/pyseg_system/blob/master/docs/tutorials/synth_sumb/synth_sumb.pdf
This tutorial contains code to generate sinthetic input data so all
results are reproducible (attached some preview images), we strongly
recommend users to complete this tutorial before starting to process
their experimental data.
Becuse every lab has its own workflow for tomogram reconstruction,
membrane segmentation and sub-tomogram averaging, don't hesitate to
contact with us if you need consulting to integrate PySeg into your
workflow.
Best regards
Antonio Martinez-Sanchez and Vladan Lucic
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20200221/d151c9ed/attachment-0001.html>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: mic.png
Type: image/png
Size: 1297619 bytes
Desc: not available
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20200221/d151c9ed/attachment-0004.png>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: mic_picking.png
Type: image/png
Size: 570683 bytes
Desc: not available
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20200221/d151c9ed/attachment-0005.png>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: ref_ap_klass.png
Type: image/png
Size: 368562 bytes
Desc: not available
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20200221/d151c9ed/attachment-0006.png>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: gt_svols.png
Type: image/png
Size: 721922 bytes
Desc: not available
URL: <http://mail.ncmir.ucsd.edu/pipermail/3dem/attachments/20200221/d151c9ed/attachment-0007.png>
More information about the 3dem
mailing list