tinyRNA provides an all-in-one solution for precision analysis of sRNA-seq data. At the core of tinyRNA is a highly flexible counting utility, tiny-count, that allows for hierarchical assignment of reads to features based on positional information, extent of feature overlap, 5’ nucleotide, length, and strandedness.
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Plotter: improvements and options for len_dist plots #191
The len_dist plot currently displays bars only for the lengths counted in each library. This can lead to misinterpretation when visually comparing plots if they differ in lengths counted.
The following command line options (and corresponding Run Config entries) will be added:
--len-dist-min/-ldi: the lower bound on plotted lengths
--len-dist-max/-lda: the upper bound on plotted lengths
The following default behaviors will be added:
If the user does not assign these values via the Run Config, default values will be determined by the min/max values used by fastp (length_required and length_limit in the Run Config)
If the user also leaves fastp's min/max values unassigned, limits will be determined by the min/max length reported across all libraries
All len_dist plots will now be plotted over a continuous range from min to max. If a library lacks counts for a given length then that length will have an axis entry but no bar
The
len_distplot currently displays bars only for the lengths counted in each library. This can lead to misinterpretation when visually comparing plots if they differ in lengths counted.The following command line options (and corresponding Run Config entries) will be added:
--len-dist-min/-ldi: the lower bound on plotted lengths--len-dist-max/-lda: the upper bound on plotted lengthsThe following default behaviors will be added:
length_requiredandlength_limitin the Run Config)len_distplots will now be plotted over a continuous range from min to max. If a library lacks counts for a given length then that length will have an axis entry but no bar