Kneaddata

Latest version: v0.12.2

Safety actively analyzes 714860 Python packages for vulnerabilities to keep your Python projects secure.

Scan your dependencies

Page 2 of 5

0.9.0

* Changed bowtie2 settings from --very-sensitive to --very-sensitive-local
* Checking 1st and last 100 seq and removing spaces from seq identifiers if present
* Add min len to start of trimmomatic run to try to resolve trimmomatic hanging during adapter trimming with short reads

0.8.0

* Add another bowtie2 option for filtering of paired end reads. This "strict" mode, the new default, removes both reads if either pair aligns. Modify existing pair alignment options into a single option.

0.7.10

* Remove trim-repetitive sequences option (prior set as default for filtering to remove adapters and overrepresented sequences).
* Add more adapters plus option to select adapter type.

0.7.9

* Modified check for ordered pairs to only check the first 100 sequence ids to reduce memory usage.
* Move resolve sublists to allow for multiple lists in final output files (resolves error with running with multiple databases).

0.7.8

* Remove temp files from decompression and reformatting after they are no longer needed to save space.
* Update SILVA_128_LSUParc_SSUParc_ribosomal_RNA to Version 0.2
* Change to the read mode for the decompress function for bz2 files for python 3 compatibility.

0.7.7alpha

* Changes in the workflow order of TRF and bowtie2
* Add trim-repetitive option flag to remove adapters and overrepresented sequences.

Page 2 of 5

© 2025 Safety CLI Cybersecurity Inc. All Rights Reserved.