Description Usage Format Source
A example output of the get_consensus_df
function.
1 |
A list with two entries:
$consensus_df
Genbank ID of the reference viral strain
Coverage probability. How unique is the base?
Position on the reference
Mathc between the reference and the consensus sequence
$entropy_df
Genbank ID of the reference viral strain
Entropy of the consensus reference
$run_len_df
Genbank ID of the reference viral strain
Minimum run of bases to the reference
First quartile of the runs to the reference
Median of the runs to the reference
Mean of the runs to the reference
Third quartile of the runs to the reference
Maximum run of bases to the reference
Maximal run to the reference
Maximal run _not_ to the reference
$median_con_prob_df
Genbank ID of the reference viral strain
Minimum of the consensus_df$con_prob
First quartile of the consensus_df$con_prob
Median of the consensus_df$con_prob
Mean of the consensus_df$con_prob
Third quartile of the consensus_df$con_prob
Maximum of the consensus_df$con_prob
$coverage_equal_ref_df
Genbank ID of the reference viral strain
How many of the consensus base match the reference base?
$coverage_overall_ref_df
Genbank ID of the reference viral strain
Ho much of the reference is covered by the consensus sequence
ftp://ftp.ncbi.nlm.nih.gov/genbank
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