Releases: hsgweon/pipits
PIPITS 3.1
PIPITS 3.0
- PIPITS now classifies sequences against UNITE 9.0
- The database now includes non-fungi (i.e. Eukaryotes)
- Comes with an option to run SINTAX (VSEARCH) to assign sequences
- Minor bug fixes
PIPITS 2.8
Updated UNITE to 8.3
PIPITS 2.7
Warcup phylotype parameter changed from -l 6 to -l 8
PIPITS 2.6
Fixed ipits_phylotype_biom so that it doesn't produce a normalised ta…
PIPITS 2.5
Now with the UNITE db released on 4 Feb 2020.
Error with deleting intermediate directory - fixed.
PIPITS 2.3
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PIPITS_PROCESS automatically downloads UNITE database (the most recent version - UNITE version 02.02.2019), so there is no need to meddle with environment variables anymore. Just run commands and it will take care of the database issues. You can still use older database by the way using --unite option (see help by -h).
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PIPITS_FUNITS exploits multiple CPUs. It's an experimental feature, so do use it with care. You can invoke to use multiple CPUs by using the usual -t NUMBER_OF_CPUS option.
PIPITS 2.2
Changes made with the way PIPITS_FUNITS dereplicates and rereplicates sequences. Now using VSEARCH to dereplicate and PIPITS_REREPLICATE to rereplicate. This shouldn't affect the resulting OTU table.
PIPITS 2.1
!!! Critical update !!!
PIPITS2 had a critical bug (PIPITS_FUNITS). Sequences were not inflating as expected after the dereplication step. So PIPITS2 results will not be accurate and will have significant impacts on abundant OTUs. (PIPITS1 results are not affected). If you have run PIPITS2, then please update PIPITS (see instruction in the main PIPITS page) and rerun your data.
PIPITS 2.0
PIPITS 2.0
- Conda integration
- Support for macOS as well as Linux
- Major structural changes and bug fixes and better logging to decode errors
- New UNITE DB (01.12.2017) has been trained and uploaded