diff --git a/.gitmodules b/.gitmodules new file mode 100644 index 0000000..1af9638 --- /dev/null +++ b/.gitmodules @@ -0,0 +1,9 @@ +[submodule "P2_Antiviral_Core/SARS-CoV-2/Mac1/SARS2-mut-fitness"] + path = P2_Antiviral_Core/SARS-CoV-2/Mac1/SARS2-mut-fitness + url = https://github.com/jbloomlab/SARS2-mut-fitness +[submodule "P2_Antiviral_Core/SARS-CoV-2/Mpro/SARS2-mut-fitness"] + path = P2_Antiviral_Core/SARS-CoV-2/Mpro/SARS2-mut-fitness + url = https://github.com/jbloomlab/SARS2-mut-fitness +[submodule "P2_Antiviral_Core/ZIKV/NS2B-NS3pro/ZIKV_DMS_NS3_EvansLab"] + path = P2_Antiviral_Core/ZIKV/NS2B-NS3pro/ZIKV_DMS_NS3_EvansLab + url = https://github.com/jbloomlab/ZIKV_DMS_NS3_EvansLab diff --git a/P2_Antiviral_Core/DENV/NS2B-NS3pro/placeholder b/P2_Antiviral_Core/DENV/NS2B-NS3pro/placeholder new file mode 100644 index 0000000..e69de29 diff --git a/P2_Antiviral_Core/EV-A71/3Cpro/placeholder b/P2_Antiviral_Core/EV-A71/3Cpro/placeholder new file mode 100644 index 0000000..e69de29 diff --git a/P2_Antiviral_Core/EV-A71/Capsid/placeholder b/P2_Antiviral_Core/EV-A71/Capsid/placeholder new file mode 100644 index 0000000..e69de29 diff --git a/P2_Antiviral_Core/EV-D68/3Cpro/placeholder b/P2_Antiviral_Core/EV-D68/3Cpro/placeholder new file mode 100644 index 0000000..e69de29 diff --git a/P2_Antiviral_Core/MERS-CoV/Mpro/placeholder b/P2_Antiviral_Core/MERS-CoV/Mpro/placeholder new file mode 100644 index 0000000..e69de29 diff --git a/P2_Antiviral_Core/README.md b/P2_Antiviral_Core/README.md new file mode 100644 index 0000000..4c15bb1 --- /dev/null +++ b/P2_Antiviral_Core/README.md @@ -0,0 +1,5 @@ +### Storage of data produced by ASAP's antiviral core + +The fitness data stored in this repository is structured into separate folders for each antiviral target that ASAP is pursuing, categorized per viral variant. Each folder contains fitness data for the target (if present) as a `git submodule` that is coupled to an external repository where the data analysis has been performed. + +Note that because SARS-CoV-2 fitness data consists of a phylogenetics analysis this is cross-genome. Because of this the submodules for SARS-CoV-2-Mpro and SARS-CoV-2-Mac1 the same. diff --git a/P2_Antiviral_Core/SARS-CoV-2/Mac1/SARS2-mut-fitness b/P2_Antiviral_Core/SARS-CoV-2/Mac1/SARS2-mut-fitness new file mode 160000 index 0000000..7930c72 --- /dev/null +++ b/P2_Antiviral_Core/SARS-CoV-2/Mac1/SARS2-mut-fitness @@ -0,0 +1 @@ +Subproject commit 7930c72fee719f9425a7a30eb8da10436c2da930 diff --git a/P2_Antiviral_Core/SARS-CoV-2/Mpro/SARS2-mut-fitness b/P2_Antiviral_Core/SARS-CoV-2/Mpro/SARS2-mut-fitness new file mode 160000 index 0000000..7930c72 --- /dev/null +++ b/P2_Antiviral_Core/SARS-CoV-2/Mpro/SARS2-mut-fitness @@ -0,0 +1 @@ +Subproject commit 7930c72fee719f9425a7a30eb8da10436c2da930 diff --git a/P2_Antiviral_Core/ZIKV/NS2B-NS3pro/ZIKV_DMS_NS3_EvansLab b/P2_Antiviral_Core/ZIKV/NS2B-NS3pro/ZIKV_DMS_NS3_EvansLab new file mode 160000 index 0000000..8a27e51 --- /dev/null +++ b/P2_Antiviral_Core/ZIKV/NS2B-NS3pro/ZIKV_DMS_NS3_EvansLab @@ -0,0 +1 @@ +Subproject commit 8a27e512fa5b07f2b295a5b7c2da50466abc19af diff --git a/P3_Data_Core/README.md b/P3_Data_Core/README.md new file mode 100644 index 0000000..787f164 --- /dev/null +++ b/P3_Data_Core/README.md @@ -0,0 +1,5 @@ +# Note on use of Enhanced Stereochemistry + +In order to give the most accurate representation possible of molecular data, enhnaced stereochemistry and [CXSMILES](https://docs.chemaxon.com/display/docs/chemaxon-extended-smiles-and-smarts-cxsmiles-and-cxsmarts.md#src-1806633) are used in the ASAP consortium. + +For a description of this convention, please see the enhanced_stereochemistry_README.pdf document in this repository. diff --git a/enhanced_stereochemistry_README.pdf b/P3_Data_Core/enhanced_stereochemistry_README.pdf similarity index 100% rename from enhanced_stereochemistry_README.pdf rename to P3_Data_Core/enhanced_stereochemistry_README.pdf diff --git a/README.md b/README.md index 9f84598..c2fe8d0 100644 --- a/README.md +++ b/README.md @@ -1,8 +1,2 @@ -# ASAP_data -Repository for data generated by the ASAP Discovery Consortium - -# Note on use of Enhanced Stereochemistry - -In order to give the most accurate representation possible of molecular data, enhnaced stereochemistry and [CXSMILES](https://docs.chemaxon.com/display/docs/chemaxon-extended-smiles-and-smarts-cxsmiles-and-cxsmarts.md#src-1806633) are used in the ASAP consortium. - -For a description of this convention, please see the enhanced_stereochemistry_README.pdf document in this repository. +# ASAP Data +Repository for data generated by the ASAP Discovery Consortium.