remove old jsons

escher/README.md

@@ -0,0 +1,12 @@
+# /escher/
+
+When the xml files in the `models` folder are updated, the corresponding `**.json` files are updated with the automatic github action `memote.yml`. 
+
+The `**_FBA.csv` are updated when the github action `escher.yml` is triggered manually. They contain information on fluxes which can be visualized on escher maps.
+
+The `**.json` files can be used to draw escher maps using either the local tool or the [web-tool](https://escher.github.io/#/).
+
+- `/blocked/` contains maps showing all universally blocked reations
+- `/egc/` contains maps drawn with reactions that had fluxes while looking for EGCs.
+- `/maps/` contains generic maps that were updated with the specific *C. striatum* models to look for missing reactions.
+-`/pathways/` contains metabolism maps that were created with escher, using the `Cstr_14.json`. As "ground-truth" the [metabolic maps from KEGG](https://www.kegg.jp/brite/query=00561&htext=br08901.keg&option=-a&node_proc=br08901_org&proc_enabled=map&panel=collapse) were used.

escher/egc/Cstr_14_DMMQL8.csv

@@ -0,0 +1,11 @@
+,fluxes
+FADMQOR,1.0
+FPRA,1.0
+GCDH,-1.0
+GLUTCOADHc,1.0
+GLYCLTDy,0.5
+GLYCTO4,0.5
+SIRA2,0.16666666666666666
+SULR,0.16666666666666666
+MQL8,1.0
+DMMQL8,0.5

escher/egc/Cstr_14_FADH2.csv

@@ -0,0 +1,4 @@
+,fluxes
+GCDH,-1.0
+GLUTCOADHc,1.0
+FADH2,1.0

escher/egc/Cstr_14_FADH2.json

@@ -0,0 +1 @@
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escher/egc/Cstr_14_FMNH2.csv

@@ -0,0 +1,9 @@
+,fluxes
+FMNRx2,0.5
+FPRA,1.0
+GCDH,-1.0
+GLUTCOADHc,1.0
+SIRA2,0.16666666666666666
+SULR,0.16666666666666666
+FADH2,1.0
+FMNH2,0.5

escher/egc/Cstr_14_GLU.csv

@@ -0,0 +1,10 @@
+,fluxes
+FADMQOR,1.0
+FPRA,1.0
+GCDH,-1.0
+GLUDy,-0.5
+GLUTCOADHc,1.0
+SIRA2,0.16666666666666666
+SULR,0.16666666666666666
+MQL8,1.0
+GLU,0.5

escher/egc/Cstr_14_MQL8.csv

@@ -0,0 +1,10 @@
+,fluxes
+FADMQOR,1.0
+FPRA,1.0
+GCDH,-1.0
+GLUTCOADHc,1.0
+NADPHQR2,0.5
+SIRA2,0.16666666666666666
+SULR,0.16666666666666666
+Q8H2,0.5
+MQL8,1.0

escher/egc/Cstr_14_NADH.csv

@@ -0,0 +1,9 @@
+,fluxes
+ECOAH36,-0.5
+FPRA,1.0
+HACD31i,0.5
+RECOAH24,0.5
+RHACOAR142,0.5
+SIRA2,0.16666666666666666
+SULR,0.16666666666666666
+NADH,0.5