tiny-count: bugfixes and improvements in diagnostic outputs

MontgomeryLab / tinyRNA

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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tiny-count: bugfixes and improvements in diagnostic outputs #300

Closed AlexTate closed 1 year ago

AlexTate commented 1 year ago

Classifier-related bugs have been fixed
Alignment tables are now produced as CSVs rather than TSVs
Alignment tables now include the alignment's chromosome as well as the number of feature candidates that were available for selection at the beginning of Stage 2. Strand is also represented as +/-/. rather than True/False/None.
Output files have been renamed:
- ...aln_table.txt ---> ...alignment_table.csv
- alignment_diags.csv ---> assignment_diags.csv

Please close PR #298 first Closes #299

taimontgomery commented 1 year ago

Tested on ram1 data.