update plots to png

monarch-initiative · Sep 8, 2023 · 4c7a4aa · 4c7a4aa
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diff --git a/content/04.results.md b/content/04.results.md
@@ -14,7 +14,7 @@ LogMap returns a score rather than a binary answer - we took
 the best performing cutoff. The distribution of F1 scores with
 different thresholds are show in @fig:logmap-scatter-plot-combined.
 
-![**LogMap Results**](images/logmap-scatter-plot-combined.pdf){#fig:logmap-scatter-plot-combined height=3in}
+![**LogMap Results**](images/logmap-scatter-plot-combined.png){#fig:logmap-scatter-plot-combined height=3in}
 
 ### Anatomy Task Results
 
@@ -27,23 +27,23 @@ Table: Results of *Drosophila* to *Danio rerio* anatomy matching
 
 In this task, GPT-4 scored highest in both accuracy and precision.
 
-![**LogMap Results**](images/logmap-scatter-plot-fbbt-zfa.pdf){#fig:logmap-scatter-plot-fbbt-zfa height=3in}
+![**LogMap Results**](images/logmap-scatter-plot-fbbt-zfa.png){#fig:logmap-scatter-plot-fbbt-zfa height=3in}
 
 We also assessed Fly to Worm:
 
 {{main_results_fbbt_wbbt}}
 Table: Results of *Drosophila* to *C elegans* anatomy matching
 {#tbl:main_results_fbbt_wbbt}
 
-![**LogMap Results**](images/logmap-scatter-plot-fbbt-wbbt.pdf){#fig:logmap-scatter-plot-fbbt-wbbt height=3in}
+![**LogMap Results**](images/logmap-scatter-plot-fbbt-wbbt.png){#fig:logmap-scatter-plot-fbbt-wbbt height=3in}
 
 ### Developmental Stage ontology task results
 
 {{main_results_hsapdv_mmusdv}}
 Table: Results of human developmental stages (HsapDv) vs mouse developmental stages (MmusDv)
 {#tbl:main_results_hsapdv_mmusdv}
 
-![**LogMap Results**](images/logmap-scatter-plot-hsapdv-mmusdv.pdf){#fig:logmap-scatter-plot-hsapdv-mmusdv height=3in}
+![**LogMap Results**](images/logmap-scatter-plot-hsapdv-mmusdv.png){#fig:logmap-scatter-plot-hsapdv-mmusdv height=3in}
 
 ### Disease matching task results
 
@@ -54,6 +54,6 @@ all heritable renal diseases from Mondo to all renal diseases from NCIT.
 Table: Results of MONDO vs NCIT (renal subset)
 {#tbl:main_results_mondo_ncit_renal_subset}
 
-![**LogMap Results**](images/logmap-scatter-plot-mondo-ncit-renal-subset.pdf){#fig:logmap-scatter-plot-mondo-ncit-renal-subset height=3in}
+![**LogMap Results**](images/logmap-scatter-plot-mondo-ncit-renal-subset.png){#fig:logmap-scatter-plot-mondo-ncit-renal-subset height=3in}
 
 In this task, the previous SOTA achieves slight gain in precision over GPT based methods.
diff --git a/content/images/logmap-scatter-plot-combined.pdf b/content/images/logmap-scatter-plot-combined.pdf
diff --git a/content/images/logmap-scatter-plot-combined.png b/content/images/logmap-scatter-plot-combined.png
diff --git a/content/images/logmap-scatter-plot-fbbt-wbbt.pdf b/content/images/logmap-scatter-plot-fbbt-wbbt.pdf
diff --git a/content/images/logmap-scatter-plot-fbbt-wbbt.png b/content/images/logmap-scatter-plot-fbbt-wbbt.png
diff --git a/content/images/logmap-scatter-plot-fbbt-zfa.pdf b/content/images/logmap-scatter-plot-fbbt-zfa.pdf
diff --git a/content/images/logmap-scatter-plot-fbbt-zfa.png b/content/images/logmap-scatter-plot-fbbt-zfa.png
diff --git a/content/images/logmap-scatter-plot-hsapdv-mmusdv.pdf b/content/images/logmap-scatter-plot-hsapdv-mmusdv.pdf
diff --git a/content/images/logmap-scatter-plot-hsapdv-mmusdv.png b/content/images/logmap-scatter-plot-hsapdv-mmusdv.png
diff --git a/content/images/logmap-scatter-plot-mondo-ncit-renal-subset.pdf b/content/images/logmap-scatter-plot-mondo-ncit-renal-subset.pdf
diff --git a/content/images/logmap-scatter-plot-mondo-ncit-renal-subset.png b/content/images/logmap-scatter-plot-mondo-ncit-renal-subset.png