Ecosyste.ms: Issues

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GitHub / ulelab/ultraplex issues and pull requests

#54 - Update README.md

Pull Request - State: closed - Opened by CharlotteAnne 7 months ago
Labels: bug, documentation

#53 - Problem with running Ultraplex

Issue - State: open - Opened by lichen-fungus 8 months ago - 1 comment

#52 - Could the read name modification be improved?

Issue - State: open - Opened by TomSmithCGAT 9 months ago - 5 comments

#50 - Update __main__.py

Pull Request - State: closed - Opened by Delayed-Gitification 12 months ago

#49 - change how version is set to be more stable

Pull Request - State: closed - Opened by CharlotteAnne 12 months ago

#48 - 3p barcode only

Pull Request - State: closed - Opened by Delayed-Gitification about 1 year ago

#47 - Ultraplex only recognizes the last 3' barcode

Issue - State: closed - Opened by arivers about 1 year ago - 3 comments

#46 - Feat versioning read number log

Pull Request - State: closed - Opened by CharlotteAnne about 1 year ago - 1 comment

#45 - Comaptibility issue with Python3.10

Issue - State: open - Opened by simonpfisterer over 1 year ago - 1 comment

#43 - Test Ultraplex on PacBio sequencing data

Issue - State: open - Opened by gooodle over 1 year ago - 1 comment

#42 - ValueError: Cannot have only N wildcards in the sequence

Issue - State: open - Opened by realzhang over 1 year ago

#41 - Demultiplexing indexed plasmid barcode libraries

Issue - State: open - Opened by rahmas36 over 1 year ago - 12 comments

#40 - Demultiplexing does not recognize 3' barcode

Issue - State: open - Opened by tiagobrc about 2 years ago - 5 comments

#38 - Remove barcodes from 3' end only

Issue - State: open - Opened by Vishvak2000 about 2 years ago - 1 comment

#37 - Memory explosion

Issue - State: open - Opened by bschilder over 2 years ago - 4 comments

#36 - Using different adapters across samples

Issue - State: open - Opened by bschilder over 2 years ago - 9 comments

#35 - please tag release to be in sync with pipy

Issue - State: open - Opened by EricDeveaud over 2 years ago - 1 comment

#34 - Feature request: Enable option to not adapter trim or quality trim

Issue - State: open - Opened by jpuritz over 2 years ago - 3 comments

#33 - AssertionError: 5' barcodes not consistent

Issue - State: closed - Opened by akhst7 over 2 years ago - 7 comments

#32 - Make using p7 sequences easier

Issue - State: open - Opened by Delayed-Gitification almost 3 years ago

#31 - Support for variable length barcodes would be useful

Issue - State: open - Opened by JHarrisonEcoEvo almost 3 years ago - 6 comments

#30 - Error: TypeError: object of type 'NoneType' has no len()

Issue - State: open - Opened by grendon almost 3 years ago - 1 comment

#29 - Fix typo in large barcode warning

Pull Request - State: closed - Opened by samirelanduk about 3 years ago

#28 - raise ValueError("Adapter sequence is empty")

Issue - State: closed - Opened by antonkulaga over 3 years ago - 1 comment

#27 - Is it support for Novaseq 6000?

Issue - State: closed - Opened by hmkim over 3 years ago - 1 comment

#26 - update python version requirement

Pull Request - State: closed - Opened by rpetit3 over 3 years ago

#25 - Non dictionary

Pull Request - State: closed - Opened by Delayed-Gitification over 3 years ago

#24 - Fix umi bug

Pull Request - State: closed - Opened by Delayed-Gitification over 3 years ago

#23 - Add a final length filter

Pull Request - State: closed - Opened by CharlotteAnne over 3 years ago
Labels: enhancement

#22 - No cudatapt required

Pull Request - State: closed - Opened by Delayed-Gitification over 3 years ago

#21 - Matched sbatch submission opts to multicore pigz

Pull Request - State: closed - Opened by amchakra about 4 years ago

#20 - renaming does work for ultra/sbatch mode

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago - 1 comment

#19 - Paired end

Pull Request - State: closed - Opened by Delayed-Gitification about 4 years ago

#18 - allow naming of samples

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago

#17 - Trim 3' adaptor from forward read for paired end

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago - 1 comment

#16 - Remove SLURM outputs from sbatch mode

Issue - State: open - Opened by Delayed-Gitification about 4 years ago

#15 - Convert barcodes to upper case and remove spaces

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago

#14 - Check that barcodes are not duplicated

Issue - State: open - Opened by Delayed-Gitification about 4 years ago

#13 - Remove comma from end of 3' barcodes if present

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago

#12 - Feat log file

Pull Request - State: closed - Opened by CharlotteAnne about 4 years ago

#11 - Even more control

Pull Request - State: closed - Opened by Delayed-Gitification about 4 years ago

#10 - removed useless stuff

Pull Request - State: closed - Opened by Delayed-Gitification about 4 years ago

#9 - Feat gzip tmp

Pull Request - State: closed - Opened by Delayed-Gitification about 4 years ago

#8 - Feat cli arguments

Pull Request - State: closed - Opened by CharlotteAnne about 4 years ago

#7 - Improve write speed

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago

#6 - Use dnaio for writing files

Issue - State: closed - Opened by Delayed-Gitification about 4 years ago

#5 - Enable demux using only 3' barcodes

Issue - State: open - Opened by Delayed-Gitification about 4 years ago

#4 - Print stats to a log file

Issue - State: closed - Opened by CharlotteAnne about 4 years ago

#3 - Add option for output folder

Issue - State: closed - Opened by CharlotteAnne about 4 years ago

#2 - Add assertion for 5'N's in 5'barcode being same length

Issue - State: closed - Opened by CharlotteAnne about 4 years ago - 1 comment

#1 - Allow local compression

Pull Request - State: closed - Opened by Delayed-Gitification about 4 years ago