Repositories list

• scipion-pyworkflow

  Public
  Underlying pyworkflow module for the Scipion framework

  core

  Python

  •

  GNU General Public License v3.0

  •5•6•37•3•Updated Mar 13, 2025Mar 13, 2025

• scipion-em-miffi

  Public
  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 13, 2025Mar 13, 2025

• scipion-em

  Public
  Base Scipion plugin defining objects and protocols for EM

  spacoretomo

  Python

  •

  GNU General Public License v3.0

  •5•9•21•2•Updated Mar 13, 2025Mar 13, 2025

• scipion-em-tomo

  Public
  Base tomography Scipion plugin with data model definition

  tomo

  Python

  •

  GNU General Public License v3.0

  •5•8•38•1•Updated Mar 13, 2025Mar 13, 2025

• scipion-em-fidder

  Public
  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 13, 2025Mar 13, 2025

• scipion-em-facilities

  Public
  Plugin for Cryo-EM facilities to be used within Scipion framework

  other

  Python

  •

  GNU General Public License v3.0

  •1•0•6•2•Updated Mar 13, 2025Mar 13, 2025

• scipion-em-prody

  Public
  Scipion plugin for ProDy

  Python

  •

  GNU General Public License v3.0

  •1•4•9•2•Updated Mar 12, 2025Mar 12, 2025

• scipion-em-imod

  Public
  Plugin to use some of the Tomography tools from IMOD in Scipion

  tomo

  Python

  •

  GNU General Public License v3.0

  •2•2•18•0•Updated Mar 12, 2025Mar 12, 2025

• scipion-em-aretomo

  Public
  Plugin to use AreTomo within the Scipion framework

  tomo

  Python

  •

  GNU General Public License v3.0

  •0•2•3•0•Updated Mar 12, 2025Mar 12, 2025

• docs

  Public
  Scipion documentation repository

  other

  Python

  •

  GNU General Public License v3.0

  •7•1•2•2•Updated Mar 12, 2025Mar 12, 2025

• scipion-em-reweighting

  Public
  scipion plugin for ensemble reweighting

  Python

  •

  GNU General Public License v3.0

  •0•1•0•0•Updated Mar 11, 2025Mar 11, 2025

• scipion-em-repic

  Public
  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 11, 2025Mar 11, 2025

• scipion-em-warp

  Public
  Plugin to use Warp programs within the Scipion framework

  spatomo

  Python

  •

  GNU General Public License v3.0

  •0•0•0•1•Updated Mar 11, 2025Mar 11, 2025

• scipion-em-tomo3d

  Public
  Plugin for the software of Jose Jesus Fernandez

  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•3•1•Updated Mar 10, 2025Mar 10, 2025

• scipion-em-roodmus

  Public
  atom

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 7, 2025Mar 7, 2025

• scipion-em-reliontomo

  Public
  Plugin to use Relion tomography programs within the Scipion framework

  tomo

  Python

  •

  GNU General Public License v3.0

  •1•1•5•0•Updated Mar 6, 2025Mar 6, 2025

• scipion-em-cryosparc2

  Public
  Plugin to use cryoSPARC2 programs within the Scipion framework

  spa

  Python

  •

  GNU General Public License v3.0

  •0•2•10•0•Updated Mar 6, 2025Mar 6, 2025

• scipion-em-cryoten

  Public
  Wrappers to CryoTen (https://github.com/jianlin-cheng/cryoten)

  atom

  Python

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated Mar 6, 2025Mar 6, 2025

• scipion-em-emantomo

  Public
  Plugin to use Eman2 tomography programs within the Scipion framework

  tomo

  Python

  •

  GNU General Public License v3.0

  •0•2•6•0•Updated Mar 5, 2025Mar 5, 2025

• scipion-em-phenix

  Public
  wrappers for phenix package

  atom

  Python

  •

  GNU General Public License v3.0

  •1•3•3•3•Updated Mar 4, 2025Mar 4, 2025

• scipion-em-isonet

  Public
  This plugin is a Scipion wrapper for Isonet, a cryo-electron tomography software for filling the missing wedge information. The official webpage of the software is https://isonetcryoet.com/ and the source code can be found at https://github.com/IsoNet-cryoET/IsoNet

  tomo

  Python

  •

  GNU General Public License v3.0

  •1•20•2•1•Updated Mar 3, 2025Mar 3, 2025

• scipion-em-kiharalab

  Public
  Utilities from Kihara Lab

  scipionkiharalab

  Python

  •

  GNU General Public License v3.0

  •1•0•0•1•Updated Feb 28, 2025Feb 28, 2025

• scipion-em-fsc3d

  Public
  Plugin to use 3DFSC program within the Scipion framework

  spa

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Feb 24, 2025Feb 24, 2025

• scipion-em-chimera

  Public
  Plugin to use Chimera programs within the Scipion framework

  atom

  Python

  •

  GNU General Public License v3.0

  •2•1•3•0•Updated Feb 23, 2025Feb 23, 2025

• scipion-em-eman2

  Public
  Plugin to use Eman2 SPA programs within the Scipion framework

  spa

  Python

  •

  GNU General Public License v3.0

  •1•1•4•1•Updated Feb 21, 2025Feb 21, 2025

• scipion-em-flexutils

  Public
  Python

  •

  GNU General Public License v3.0

  •0•0•3•0•Updated Feb 13, 2025Feb 13, 2025

• scipion-em-gapstop

  Public
  Plugin to use Gapstop_TM in Scipion

  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Feb 12, 2025Feb 12, 2025

• scipion-em-deepict

  Public
  This plugin provides a wrapper around the DeePiCt software (https://github.com/ZauggGroup/DeePiCt)

  tomo

  Python

  •

  GNU General Public License v3.0

  •0•0•1•1•Updated Feb 10, 2025Feb 10, 2025

• scipion-em-datamanager

  Public
  A Scipion plugin to make depositions or retrieve data to/from several data portals

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Feb 7, 2025Feb 7, 2025

• scipion-em-relion

  Public
  Plugin to use Relion SPA programs within the Scipion framework

  spa

  Python

  •

  GNU General Public License v3.0

  •0•3•24•2•Updated Feb 5, 2025Feb 5, 2025