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I'm trying to assign flat, single-linkage clusters to sequence IDs separated by an edit distanc… Read more Single Linkage Clustering Of Edit Distance Matrix With Distance Threshold Stopping Criterion

I have two lists of genes that i'm analyzing. Essentially I want to sort the elements of these … Read more Getting Intersection Of Two Lists In Python

Input fasta-format text file: http://www.jcvi.org/cgi-bin/tigrfams/DownloadFile.cgi?file=/opt/www/w… Read more Biopython Alignio Valueerror Says Strings Must Be Same Length?

I am on Ubuntu 20.04.1 LTS focal, and using R. I want to install in R a library to perform local se… Read more Why R Library 'ssw' Cannot Find Python Module Installed Via Pip3, Although Pip3 Module Installation Is Satisfied?

So I have a csv file where each line represents hierarchical data in the form: 'Phylum',… Read more Convert Csv To Newick Tree

I'm trying to implement the Smith-Waterman algorithm for local sequence alignment using the aff… Read more Traceback In Smith-wateman Algorithm With Affine Gap Penalty

I am using the following regex: orfre = '^(?:...)*?((ATG)(...){%d,}?(?=(TAG|TAA|TGA)))' % (… Read more Using Regex To Search Until Desired Pattern

I need to extract Gleason scores from a flat file of prostatectomy final diagnostic write-ups. Thes… Read more Pyparsing: Extract Variable Length, Variable Content, Variable Whitespace Substring