Index upgrade and probability feature #17
Merged
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
… what we have right now. This could be a very sticky bugfix with the index issues that we are seeing related to the sparse feature. The first thing to do is to check the log for a sparse first k-mer with the probability function 'kmerdb probability test/data/sample.fa test/data/Cacetobutylicum_ATCC824.8.kdb' and grep if it is in the kdb file. Then we'll see what it has next to it in the kdbi.
…I'll explain in full in comments on the pull request from this issue.
…ifies the null model in the website.
MatthewRalston
added
bug
MatthewRalston
added a commit
that referenced
this pull request
Jan 14, 2021
…ity_feature Index upgrade and probability feature
MatthewRalston
added a commit
that referenced
this pull request
May 1, 2022
…ity_feature Index upgrade and probability feature
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Outdated suggestions cannot be applied.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.
Fixes the
kmerdb indexsubcommand substantially by fixing thekmerdb.indexsubmodule. This is made use of by thekmerdb probabilitysubcommand, and the newkmerdb.probabilitysubmodule, which are implemented in this branch as well.