v1.3.0

We updated fivepseq dependencies to work with python versions up to and including 3.8.

v1.2.0

v1.2.0

fivepseq 1.0.0 stable

v.1.0.0

1.0.0 stable

fivepseq v1.0b7 release

Bug fix: triangle point hovers on genesets.

fivepseq v1.0b6 release

1. Transcript names added to triangle plot hovers
2. Significance calculations for frame barplots changed.

fivepseq v1.0b5 release

Features

• count threshold set on points in triangle plots
• codon-motif relative counts (di/tri-codons/peptides)
• differential heatmaps added in comparisons
• RPM normalization done on downsampled read counts
• transcript type specified at input - alternative transcript features possible
• (optionally skipped) masking of gene boundaries for codon-specific counts
• frame barplot p values showing the maximum p-value
• meta peak significance (Poisson bassed) annotations

Improvements

• count distribution written as dictionary
• changed the size of triangle plot points

Bug fixes

• figure titles fixed for geneset plots
• codon linechart raw counts bug fixed
• python 3 compatibility bugs fixed

fivepseq v1.0b2 release

• dynamic title for html documents
• genesets not working in python 3. Reason: has_key is not a function for dictionaries (replace with 'keyname' in dictionary)
• replaced time.clock() with time.time()
• codon line chart raw count bug fixed
• frame barplots displaying maximum p-value
• compute peak p-values for meta-counts based on Poisson distribution
• triangle plot point size reduced

fivepseq 1.0 beta

Fivepseq 1.0 beta release

fivepseq v0.9.0 release

Combine counts bug fixed

fivepseq v0.8.0 release

major bug fix: amino acid counting on second iteration (over geneset containing versions)
minor plot improvements: scaled counts instead of RPM on heatmaps; toolbar on the left