files from another job e.g., 614e0a1b
target: filename of file to be used as the reference, if empty the first file dropped will be used
The INF csv output file can be found here inf.csv
The raw output files for each step of the pipeline can be found here and downloaded as a ZIP file here.
rna_calc_infs.py - a tool to calc inf_all (INF of all interactions), inf_stack (INF for stacking interaction), inf_WC (INF for Watson-Crick interactions), inf_nWC (INF for non-Watson-Crick interactions), SNS_WC (sensitivity for Watson-Crick interactions), PPV_WC (positive predictive values for Watson-Crick interactions), SNS_nWC (sensitivity for non-Watson-Crick interactions), PPV_nWC (positive predictive values for non-Watson-Crick) interactions between two structures (or one vs more)
If you still have problem with various number of atoms, check out this issue: get_rnapuzzle_ready see Tools
target fn inf_all inf_stack inf_WC inf_nWC sns_WC ppv_WC sns_nWC ppv_nWC 21_3dRNA_1_rpr.pdb 21_ChenHighLig_1_rpr.pdb 0.64 0.65 0.6 0.58 1.0 0.36 1.0 0.33 21_3dRNA_1_rpr.pdb 21_Adamiak_1_rpr.pdb 0.59 0.59 0.6 0.71 1.0 0.36 1.0 0.5 21_3dRNA_1_rpr.pdb 21_Das_1_rpr.pdb 0.57 0.62 0.6 0.3 1.0 0.36 1.0 0.09
T. Waleń, G. Chojnowski, P. Gierski, and J. M. Bujnicki, “ClaRNA: a classifier of contacts in RNA 3D structures based on a comparative analysis of various classification schemes.,” Nucleic Acids Research, vol. 42, no. 19, pp. e151–e151, Oct. 2014.
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