fixed typo's and algorithm swaps

oliverchampion · oliverchampion · commit 5d258753503e · 2025-12-17T11:30:34.000+01:00
diff --git a/README.md b/README.md
@@ -38,10 +38,10 @@ The **test** folder contains the test files corresponding to the contributed cod
 The **utils** folder contains various helpful tools.
 
 ## Citing
-If this repository was usefull, please cite our [upcoming MRM paper](https://eur04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2Fdrive.google.com%2Fdrive%2Fu%2F0%2Ffolders%2F1Yh7cHuBIDQ0fmlWum9banDFgCc6uf3XH__%3B!!K-Hz7m0Vt54!gNxtgp_trP5qT7uJBD7zz5-Wwi7y83_56-qBO2I2Zd9ATILK5_BWzAKmxSah9-y8N8Wsgy67pn1LMeCd9xfaQGM%24&data=05%7C02%7Co.j.gurney-champion%40amsterdamumc.nl%7Cceeee39962fc4098e61708de2e90699a%7C68dfab1a11bb4cc6beb528d756984fb6%7C0%7C0%7C638999394967163935%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=mu6wjTAM1DlCgZjfM3mkKZEuSm1vNiteCxdh5kV29WY%3D&reserved=0). The repository contains a lot of code from other sites. Please cite the appropriate papers depending on the code you used. The citations can be found with the "cite" function from OsipiBase:
+If this repository was useful, please cite our [upcoming MRM paper](https://eur04.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2Fdrive.google.com%2Fdrive%2Fu%2F0%2Ffolders%2F1Yh7cHuBIDQ0fmlWum9banDFgCc6uf3XH__%3B!!K-Hz7m0Vt54!gNxtgp_trP5qT7uJBD7zz5-Wwi7y83_56-qBO2I2Zd9ATILK5_BWzAKmxSah9-y8N8Wsgy67pn1LMeCd9xfaQGM%24&data=05%7C02%7Co.j.gurney-champion%40amsterdamumc.nl%7Cceeee39962fc4098e61708de2e90699a%7C68dfab1a11bb4cc6beb528d756984fb6%7C0%7C0%7C638999394967163935%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=mu6wjTAM1DlCgZjfM3mkKZEuSm1vNiteCxdh5kV29WY%3D&reserved=0). The repository contains a lot of code from other sites. Please cite the appropriate papers depending on the code you used. The citations can be found with the "cite" function from OsipiBase:
 ```ruby
 fit=osipibase(algorithm="IAR_LU_biexp")
-fit.cite
+fit.cite()
 ```
 DOIs can also be found in [code_contributions_record](doc/code_contributions_record.csv).
 
diff --git a/doc/code_contributions_record.csv b/doc/code_contributions_record.csv
@@ -17,9 +17,9 @@ IVIM,Fitting,Variable projection,See referenced article. Supports units in mm2/s
 IVIM,Fitting,Variable projection,See referenced article. Supports units in mm2/s and µm2/ms,IAR_LundUniversity,TF2.4_IVIM-MRI_CodeCollection/src/original/IAR_LundUniversity/ivim_fit_method_modified_topopro.py,Fadnavis et al. Modified by Ivan A. Rashid,Lund University,IvimModelTopoPro,https://doi.org/10.3389/fnins.2021.779025,IAR_LU_modified_topopro
 IVIM,Fitting,Linear fit,Linear fit for D with extrapolation for f. Supports units in mm2/s and µm2/ms,IAR_LundUniversity,TF2.4_IVIM-MRI_CodeCollection/src/original/IAR_LundUniversity/ivim_fit_method_modified_linear.py,Modified by Ivan A. Rashid,Lund University,IvimModelLinear,tba,
 IVIM,Fitting,sIVIM fit,NLLS of the simplified IVIM model (sIVIM). Supports units in mm2/s and µm2/ms,IAR_LundUniversity,TF2.4_IVIM-MRI_CodeCollection/src/original/IAR_LundUniversity/ivim_fit_method_modified_sivim.py,Modified by Ivan A. Rashid,Lund University,IvimModelsIVIM,tba,
-IVIM,Fitting,Segmented NLLS fitting,MATLAB code,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,IVIM_seg,https://doi.org/10.1007/s10334-018-0697-5,OJ_GU_seg
-IVIM,Fitting,Bayesian,MATLAB code,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,IVIM_bayes,https://doi.org/10.1007/s10334-018-0697-5,OJ_GU_segMATLAB
-IVIM,Fitting,Segmented NLLS fitting,Specifically tailored algorithm for NLLS segmented fitting,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,seg,https://doi.org/10.1002/mrm.26783,OJ_GU_bayesMATLAB
+IVIM,Fitting,Segmented NLLS fitting,MATLAB code,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,IVIM_seg,https://doi.org/10.1007/s10334-018-0697-5,OJ_GU_segMATLAB
+IVIM,Fitting,Bayesian,MATLAB code,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,IVIM_bayes,https://doi.org/10.1002/mrm.26783,OJ_GU_bayesMATLAB
+IVIM,Fitting,Segmented NLLS fitting,Specifically tailored algorithm for NLLS segmented fitting,OJ_GU,TF2.4_IVIM-MRI_CodeCollection/src/original/OJ_GU/,Oscar Jalnefjord,University of Gothenburg,seg,https://doi.org/10.1007/s10334-018-0697-5,OJ_GU_seg
 IVIM,Fitting,Linear fit,Linear fit for D and D* and f. Intended to be extremely fast but not always accurate,ETP_SRI,TF2.4_IVIM-MRI_CodeCollection/src/original/ETP_SRI/LinearFitting.py,Eric Peterson,SRI International,LinearFit,tba,ETP_SRI_LinearFitting
 IVIM,Fitting,LSQ fitting,MATLAB code,ASD_MemorialSloanKettering,TF2.4_IVIM-MRI_CodeCollection/src/original/ASD_MemorialSloanKettering/MRI-QAMPER_IVIM,Eve LoCastro/Ramesh Paudyal/Amita Shukla-Dave,Memorial Sloan Kettering,IVIM_standard_bcin,https://doi.org/10.3390/tomography9060161,ASD_MemorialSloanKettering_QAMPER_IVIM
 IVIM,Fitting,Neural network,Part of the SUPER-IVIM-DC python package,TCML_TechnionIIT,TF2.4_IVIM-MRI_CodeCollection/src/original/TCML_TechnionIIT/SUPER-IVIM-DC,Noam Korngut/Elad Rotman/Onur Afacan Sila Kurugol/Yael Zaffrani-Reznikov/Shira Nemirovsky-Rotman/Simon Warfield/Moti Freiman,TCML Technion IIT,super_ivim_dc.infer.infer_from_signal,https://doi.org/10.1007/978-3-031-16434-7_71,Super_IVIM_DC
diff --git a/src/standardized/OJ_GU_bayesMATLAB.py b/src/standardized/OJ_GU_bayesMATLAB.py
@@ -17,7 +17,7 @@ class OJ_GU_bayesMATLAB(OsipiBase):
     id_algorithm_type = "Bi-exponential fit"
     id_return_parameters = "f, D*, D, S0"
     id_units = "seconds per milli metre squared or milliseconds per micro metre squared"
-    id_ref = "https://doi.org/10.1007/s10334-018-0697-5"
+    id_ref = "https://doi.org/10.1002/mrm.26783"
 
     # Algorithm requirements
     required_bvalues = 4
diff --git a/src/standardized/OJ_GU_seg.py b/src/standardized/OJ_GU_seg.py
@@ -16,7 +16,7 @@ class OJ_GU_seg(OsipiBase):
     id_algorithm_type = "Segmented bi-exponential fit"
     id_return_parameters = "f, D*, D"
     id_units = "mm2/s"
-    id_ref = "https://doi.org/10.1002/mrm.26783"
+    id_ref = "https://doi.org/10.1007/s10334-018-0697-5"
 
     # Algorithm requirements
     required_bvalues = 4
diff --git a/src/standardized/TF_reference_IVIMfit.py b/src/standardized/TF_reference_IVIMfit.py
@@ -16,7 +16,7 @@ class TF_reference_IVIMfit(OsipiBase):
     id_algorithm_type = "Bi-exponential fit"
     id_return_parameters = "f, D*, D"
     id_units = "seconds per milli metre squared or milliseconds per micro metre squared"
-    id_ref = "code specially written for this repository, based on the IVIM consensus paper (Eric Sigmund, Susi Rauh, et al. 2026) which will appear in jMRI"
+    id_ref = "code specially written for this repository, based on the IVIM consensus paper (Eric Sigmund, Susi Rauh, et al. 2026) which will appear in JMRI"
 
     # Algorithm requirements
     required_bvalues = 4
diff --git a/src/wrappers/OsipiBase.py b/src/wrappers/OsipiBase.py
@@ -509,7 +509,7 @@ def D_and_Ds_swap(self,results):
         return results
 
     def cite(self):
-        print("thank you for using our repository. If it was usefull for your paper, please cite our upcoming paper in MRM.")
+        print("thank you for using our repository. If it was useful for your paper, please cite our upcoming paper in MRM.")
         if self.id_ref is not None:
             print("The current fit method you have loaded should be cited with: " + self.id_ref)
         else:
