V0.9.2 dev #36
Merged
V0.9.2 dev #36
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Crude initial version can only read input files as command line arguments. These are printed to the terminal.
The second iteration includes the creation of pandas dataframes and can read the optional parameter 'colour' from the command line.
Add functionality to the script that collects chunks of useful information from the classifications to create heatmaps specific to certain taxa. I.e. one with aggregated superkingdoms, one with only viruses (no phages), one with only phages, and one with only bacteria.
Write summaries of the number of taxa found at each taxonomic rank for all chunks of information. (File names are entered as command-line arguments.)
Working demo function for creating heatmaps of superkingdoms, viruses, phages and bacteria. Needs function to automatically create heatmaps for different taxonomic ranks per group before it can replace the old script.
…te report, snakemake and config file. Also, add HAV TT later.
Finish the replacement script that fixes the bug, is no longer dependent on snakemake and creates the same output files when provided with the right command-line arguments.
Solved issues with IGVjs, symlinks and nginx Stable for 0.9.2, will be developed further in later versions/branches
Tt fix orf info
…into v0.9.2-dev
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
[stable] release of Jovian 0.9.2
solved issues:
#32
#31
#20
#29 (Workaround)
#25 (partly)
#12
#8