DOC: Add bundle name list

Add bundle name list.

Author: jhlegarreta

README.md

@@ -29,6 +29,8 @@ Run `wm_quality_control_tractography.py --help` to test if the installation is s
 
     https://github.com/SlicerDMRI/whitematteranalysis/blob/master/doc/subject-specific-tractography-parcellation.md
 
+* The names of the anatomical bundles WMA extracts can be found in the [bundles](doc/bundles.md) page.
+
 * WMA implements algorithms from publications listed here:
 http://projects.iq.harvard.edu/whitematteranalysis/publications
 

doc/bundles.md

@@ -0,0 +1,23 @@
+# Bundle naming
+
+The below table contains the names of the anatomical bundles WMA extracts as
+described in Table 3 in [https://doi.org/10.1016/j.neuroimage.2018.06.027](https://doi.org/10.1016/j.neuroimage.2018.06.027).
+
+## Bundles
+
+| Group | Count | Name |
+| --- | --- | --- |
+| **Association** | 24 | <p> arcuate fasciculus (AF) – LR <p> cingulum bundle (CB) – LR <p> external capsule (EC) – LR <p> extreme capsule (EmC) – LR <p> inferior longitudinal fasciculus (ILF) – LR <p> inferior occipito-frontal fasciculus (IoFF) – LR <p> middle longitudinal fasciculus (MdLF) – LR <p> posterior limb of internal capsule (PLIC) – LR <p> superior longitudinal fasciculus I (SLF I) – LR <p> superior longitudinal fasciculus II (SLF II) – LR <p> superior longitudinal fasciculus II (SLF III) – LR <p> uncinate fasciculus (UF) – LR |
+| **Cerebellar** | 9 | <p> cortico-ponto-cerebellar (CPC) - LR <p> inferior cerebellar peduncle (ICP) – LR <p> intracerebellar input and Purkinje tract (Intra-CBLM-I&P) – LR <p> intracerebellar parallel tract (Intra-CBLM-PaT) – LR <p> middle cerebellar peduncle (MCP) – C                                                                                                                                                                                                                                                                            |
+| **Commissural** | 7 | <p> corpus callosum 1 (CC 1) – C <p> corpus callosum 2 (CC 2) – C <p> corpus callosum 3 (CC 3) – C <p> corpus callosum 4 (CC 4) – C <p> corpus callosum 5 (CC 5) – C <p> corpus callosum 6 (CC 6) – C <p> corpus callosum 7 (CC 7) – C                                                                                                                                                                                                                                                             |
+| **Projection** | 18 | <p> corticospinal tract (CST) – LR <p> corona-radiata-frontal (CR-F) (excluding the CST) – LR <p> corona-radiata-parietal (CR-P) (excluding the CST) – LR <p> striato-frontal (SF) – LR <p> striato-occipital (SO) – LR <p> striato-parietal (SP) – LR <p> thalamo-frontal (TF) – LR <p> thalamo-occipital (TO) – LR <p> thalamo-parietal (TP) – LR                                                                                                                                                                                 |
+| **Superficial** | 16 | <p> superficial-frontal (Sup-F) – LR <p> superficial-frontal-parietal (Sup-FP) – LR <p> superficial-occipital (Sup-O) – LR <p> superficial-occipital-temporal (Sup-OT) – LR <p> superficial-parietal (Sup-P) – LR <p> superficial-parietal-occipital (Sup-PO) – LR <p> superficial-parietal-temporal (Sup-PT) – LR <p> superficial-temporal (Sup-T) – LR                                                                                                                                                                            |
+| Total | 74 | |
+
+## Notes
+
+The above bundles correspond to the anatomical bundles the [ORG atlas contains](https://github.com/SlicerDMRI/ORG-Atlases/blob/master/Tracts-in-ORG-800FC-100HCP.md).
+
+Additionally:
+- The cingulum is shortened as "Cg" or "Cing" in other works.
+- The IoFF is named as IFOF (inferior fronto-occipital fasciculus) in other works.