Here we will put the sphire tutorial that is right now in available as pdf

====== General ======

====== 1. Software Installation ======
===== 1.1 Install sphire and MPI support =====
===== 1.2 Install crYOLO =====
===== 1.3 Installation of accociated EM Software Packages =====

====== 2. Project ======

====== 3. Movie ======
===== 3.1 Micrograph Movie Alignement =====
===== 3.2 Drift Asssessment =====

====== 4. CTER ======
===== 4.1 CTF Estimation =====
===== 4.2 CTF Assessment =====

====== 5. Window ======
===== 5.1 Particle Coordinates =====
===== 5.2 Particle Extraction =====
===== 5.3 Particle Stack =====

====== 6. ISAC ======
===== 6.1 2D Clustering =====
===== 6.2 Beautifier =====
===== 6.3 ISAC2 Stack Subset =====

====== 7. VIPER ======
===== 7.1 Initial 3D Model - RVIPER =====
===== 7.2 Compare re-projections =====
===== 7.3 Volume Adjustment =====
===== 7.4 Adaptive 3d Mask =====

====== 8. MERIDIEN ======
===== 8.1 3D Refinement =====
===== 8.2 PostRefiner =====

====== 9. SORT3D ======
===== 9.1 3D Variability =====
===== 9.2 3D Clustering =====
===== 9.3 Local Subset Refinement and Final Reconstruction =====

====== 10. Advanced Refinement ======
===== 10.1 CTF Refinement =====

====== 11. LOCALRES ======
===== 11.1 Local Resolution =====
===== 11.2 Local Filtering =====