LO - 3 - Alignments - Githubissues

cogent3 / Cogent3Workshop

Materials for the Phylomania workshop

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

8 stars 4 forks source link

Closed GavinHuttley closed 1 year ago

GavinHuttley commented 1 year 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 1 year ago

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

KatherineCaley commented 1 year ago

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