User: Mkl

gravatar for Mkl
Mkl100
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100
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Last seen:
7 years, 9 months ago
Joined:
7 years, 10 months ago
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2***@biostars.org

Posts by Mkl

<prev • 19 results • page 1 of 2 • next >
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Comment: C: Pairwise Sequence Alignment Using Pairwise2 Module With Biopython
... No.I haven't tried nested for loop. ...
written 7.8 years ago by Mkl100
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Comment: C: Pairwise Sequence Alignment Using Pairwise2 Module With Biopython
... @DK.Thank you very much for your code.I didn't get any output using your code. I am trying to do hierarchical clustering. First I have to create a distance matrix based on this formula "distance=100-sequence identity". After that I have to create a Dendrogram based on hierarchial clustering. ...
written 7.8 years ago by Mkl100
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Comment: C: Pairwise Sequence Alignment Using Pairwise2 Module With Biopython
... @DK Thank you very much for your code.I am trying to do hierarchial clustering.First I have to create a distance matrix based on this formula "distance=100-sequence identity". After that I have to do clustering and has to create a dendrogram also. ...
written 7.8 years ago by Mkl100
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Pairwise Sequence Alignment Using Pairwise2 Module With Biopython
... Hello, I am trying to get the pairwise sequence alignment with biopython. I tried the following code as example.This code is only for two sequences. My data set contains 300 sequences.I have to get pairwise sequence alignment for each sequence. That is alignment between first and second sequence, f ...
pairwise python alignment biopython written 7.8 years ago by Mkl100 • updated 9 months ago by RamRS23k
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Comment: C: Error: Parsing Pdb File With Biopython
... @peter Iam using biopython 1.57 ...
written 7.8 years ago by Mkl100
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Comment: C: How To Find Disordered Residues From A Protein Sequence Using Biopython?
... @peter I am trying to read PDB_Seqres sequences from SCOP.After this, I can do pairwise sequence alignment using clustalw with Biopython. gaps in the alignment denotes disordered residues. ...
written 7.8 years ago by Mkl100
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Error: Parsing Pdb File With Biopython
... I am trying to parse a PDB file and also trying to extract some Model, Chain, Residue and Atom objects with Biopython. I tried the following code from Bio.PDB.PDBParser import PDBParser parser=PDBParser() structure=parser.get_structure("test", "1fat.pdb") model=structure[0] chain=model["A"] residu ...
pdb biopython parsing written 7.8 years ago by Mkl100 • updated 7.8 years ago by Aurobhima100
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Comment: C: Clustalw Alignment Error In Biopython
... When I gave the path for seqs.aln file I got the output. ...
written 7.8 years ago by Mkl100
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Comment: C: Clustalw Alignment Error In Biopython
... Thank you for your answer.I tried cline() instead of print cline().But I am getting error. ...
written 7.8 years ago by Mkl100
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Comment: C: How To Count Aminoacids From A Text File In Biopython?
... Thank you very much. ...
written 7.8 years ago by Mkl100

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