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prokino / kinview

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New panel layout (add Download buttons) #54

Open leon1003 opened 4 years ago

leon1003 commented 4 years ago

Current: Current New: New Click Aligned sequences:Alignment -> Download the file in /KinView/aligned_aln/XXX.aln Click Aligned sequences:Full-length seq -> Download the file in /KinView/aligned_full/XXX.fasta Click Aligned sequences:Kinase domain -> Download the file in /KinView/aligned_kd/XXX.fasta Click Aligned sequences:Mutation -> Download the file in /KinView/aligned_mut/XXX.txt Click Aligned sequences:PTM -> Download the file in /KinView/aligned_ptm/XXX.txt Click Ortholog sequences:Full-length seq -> Download the file in /KinView/ortholog_full/XXX.fasta Click Ortholog sequences:Kinase domain -> Download the file in /KinView/ortholog_kd/XXX.fasta

noghte commented 4 years ago

Done in 224f348f

However, it seems some files do not exist. That makes the app opens a new window with wrong paths. For example: alignment sequences of Euk-like>ABC1, or ortholog sequences of TK>AXL>MERTK I keep this issue open to ask this question: @leon1003, are you going to provide aligned sequences (all five types) and ortholog sequences (both types of Full-length seq and Kinase domain) for all of the proteins? If not, I should find a way to not opening new windows.

leon1003 commented 4 years ago

Not all the branch in the tree has an alignment, but at least ALL of them have ortholog sequences. For example, TK>AXL>MERTK: /ortholog_kd/PK_TK_AXL__MERTK.fasta They have the same prefix with the 10th column of KinaseTree.csv (but actually not all of them have weblogo file). There are 844 nodes (all intermediate nodes and leaves), and there are also 844 files in /ortholog_kd/. However, there are only 827 files in /ortholog_full/, because the second kinase domain ("XXX-b") has no its own full-length ortholog. I am thinking about generating files for all 844 nodes later.