Difference between revisions of "DeepPicker"

Latest revision as of 14:34, 15 August 2022

Description

DeepPicker employs a novel cross-molecule training strategy to capture common features of particles from previously-analyzed micrographs, and thus does not require any human intervention during particle picking.

Environment Modules

Run module spider deeppicker to find out what environment modules are available for this application.

System Variables

HPC_DEEPPICKER_DIR - installation directory
HPC_DEEPPICKER_BIN - executables directory

Additional Information

This software is installed in a container.

Basic usage:

launch_deeppicker autoPick.py --help

To see the list of available executables:

launch_deeppicker ls $HPC_DEEPPICKER_BIN

@@ Line 1: / Line 1: @@
-[[Category:Software]][[Category:Deep Learning]][[Category:Cross-Molecule Training]]
+[[Category:Software]][[Category:Imaging]]
 {|<!--CONFIGURATION: REQUIRED-->
 |{{#vardefine:app|deeppicker}}
@@ Line 21: / Line 21: @@
 <!--Modules-->
-==Required Modules==
+==Environment Modules==
-<!--
+Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
-===Serial===
-* {{#var:app}}
-===Parallel (OpenMP)===
-* intel
-* {{#var:app}}
-===Parallel (MPI)===
-* intel
-* openmpi
-* {{#var:app}}
--->
 ==System Variables==
-* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
+* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
+* HPC_{{uc:{{#var:app}}}}_BIN - executables directory
 <!--Configuration-->
 {{#if: {{#var: conf}}|==Configuration==
@@ Line 48: / Line 39: @@
   launch_deeppicker autoPick.py --help
-To see the list of available scripts
+To see the list of available executables:
   launch_deeppicker ls $HPC_DEEPPICKER_BIN