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Fixing askcos #69

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merged 32 commits into from
May 27, 2024
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6b77b49
Tiny change in README
kabu00002 Apr 16, 2024
1f56872
custom/1_1 completed
kabu00002 Apr 16, 2024
8fa0ee2
custom/1_2 completed
kabu00002 Apr 16, 2024
61048be
custom/1_3 completed
kabu00002 Apr 16, 2024
5704c37
modified use of askcos api
kabu00002 Apr 23, 2024
b6b5166
bug fixed
kabu00002 Apr 30, 2024
ccd65cd
running 1_4
kabu00002 Apr 30, 2024
676f7dc
rerun 1_4 + fix plots retro
kabu00002 May 13, 2024
412ac55
removed redundant code for writin to sdf
kabu00002 May 13, 2024
a588b6c
updated custom kinfraglib
kabu00002 May 13, 2024
4ef05c8
updated sutsom kinfraglib
kabu00002 May 13, 2024
344576f
added comments
kabu00002 May 13, 2024
96545d6
rerun 1_4
kabu00002 May 13, 2024
3e3a7c5
added note to notebook
kabu00002 May 13, 2024
74c2459
Merge branch 'fixing_askcos' of github.com:volkamerlab/KinFragLib int…
kabu00002 May 13, 2024
ece5741
updated readme
kabu00002 May 13, 2024
550b66c
updated readme
kabu00002 May 13, 2024
6670107
fixed bug in plots
kabu00002 May 13, 2024
53cde35
rerun syba
kabu00002 May 13, 2024
fb2029f
fixed bug in plots
kabu00002 May 13, 2024
7849e83
rerun syba
kabu00002 May 13, 2024
da4475f
fixed another bug (showing decimals for mean)
kabu00002 May 13, 2024
c004530
Merge branch 'update_custom_kinfraglib' of github.com:volkamerlab/Kin…
kabu00002 May 13, 2024
b77e35f
changed path
kabu00002 May 13, 2024
a9f207a
Merge branch 'fixing_askcos' of github.com:volkamerlab/KinFragLib int…
kabu00002 May 13, 2024
74d3009
rerun 2_2
kabu00002 May 13, 2024
debbada
spelling and small rephrasing
PaulaKramer May 13, 2024
012be92
wip
kabu00002 May 27, 2024
ff36cf2
wip
kabu00002 May 27, 2024
6ce9426
review
kabu00002 May 27, 2024
e0bca1d
Merge branch 'fixing_askcos' of github.com:volkamerlab/KinFragLib int…
kabu00002 May 27, 2024
0c66eeb
added installation hint to README
kabu00002 May 27, 2024
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2 changes: 0 additions & 2 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -151,5 +151,3 @@ Backenköhler M, Groß J, Wolf V, Volkamer A.
- **Constructing Innovative Covalent and Noncovalent Compound Libraries: Insights from 3D Protein–Ligand Interactions** Xiaohe Xu, Weijie Han, Xiangzhen Ning, Chengdong Zang, Chengcheng Xu, Chen Zeng, Chengtao Pu, Yanmin Zhang, Yadong Chen, and Haichun Liu *Journal of Chemical Information and Modeling* **2024**[10.1021/acs.jcim.3c01689](https://pubs.acs.org/doi/10.1021/acs.jcim.3c01689)




4 changes: 3 additions & 1 deletion data/filters/retrosynthesizability/README.md
Original file line number Diff line number Diff line change
@@ -1,3 +1,5 @@
# retrosynthesizability data

- `retro.txt`: File containing the results that were already assembled in previous queries for fragment pairs or those that will be queried in future searches. It contains \[pair SMILES\]; \[child(ren) 1 SMILES\]; \[child(ren) 2 SMILES\]; \[plausibility/ies\] for every requested fragment pair.
- `retro.txt`: File containing the results that were already assembled in previous queries for fragment pairs or those that will be queried in future searches. It contains \[pair SMILES\]; \[child(ren) 1 SMILES\]; \[child(ren) 2 SMILES\]; \[plausibility/ies\] for every requested fragment pair.

**Note:** The ASKCOS results for the given KinFragLib data are already precomputed, thus for that ASKCOS does not need to be installed to successfully run this notebook. However, if the notebook is executed on new data, the ASKCOS needs to be installed beforehand. To install ASKCOS, please follow the installation given at [https://askcos-docs.mit.edu/](https://askcos-docs.mit.edu/guide/1-Introduction/1.1-Introduction.html).
92,326 changes: 38,763 additions & 53,563 deletions data/filters/retrosynthesizability/retro.txt

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