LO - 3 - Alignments - Githubissues

cogent3 / Cogent3Workshop

Materials for the Phylomania workshop

BSD 3-Clause "New" or "Revised" License

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Closed GavinHuttley closed 9 months ago

GavinHuttley commented 10 months ago

identifying divergent sequences prior to alignment and their relationships (using k-mer based tree estimation)
using cogent3 to align, the app, memory, speed, parameters
quantifying alignment quality using dotplots showing alignment path between most divergent sequences
information plots, plotting gaps
Alignment.count_gaps_per_seq(induced_by, unique)
Alignment.omit_bad_seqs()

KatherineCaley commented 10 months ago

I have passed on some rough code to @fredjaya to document

KatherineCaley commented 9 months ago

Closing as contented related to this issue will be described in #40