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1. pyYAMB pyYAMB Public

   Express metagenome binning

   Python

2. zga zga Public

   ZGA prokaryotic genome assembly and annotation pipeline

   Python 11 1

3. EPhIMM EPhIMM Public

   Express Phylogenetic Inference based on Multiple Markers

   Shell 2

4. genomic-utilities genomic-utilities Public

   Visualization for genomics

   Python

5. 16S extraction from genomes 16S extraction from genomes

   1

   # Requires Infernal and esl-sfetch from Easel (part of HMMER and Infernal)

   2

   # https://github.com/EddyRivasLab/easel

   3

   # With little change of article:

   4

   # https://cryptogenomicon.org/2011/05/03/extracting-hmmer-results-to-sequence-files-easel-miniapplications/

   5

   # Don't forget to change the path to your covariance model!

6. Fix multiline paste in python Fix multiline paste in python

   1

   # The recipe was taken from https://github.com/Homebrew/homebrew-core/issues/68193#issuecomment-753628592

   2

   #

   3

   # From time to time I face the next problem:

   4

   # When I paste several lines to Python's interactive interpreter

   5

   # they hadn't been executed one by one an throw an error: