Issues · IMP / IMP3 · GitLab

Assembly: merging/consensus: replace CAP3

#11 · created Jul 22, 2020 by Valentina Galata Assembly enhancement
- 16
updated Mar 17, 2021
Read filtering: rm rRNA reads: replace sortmerna

#12 · created Aug 17, 2020 by Valentina Galata discussion enhancement feature
- 1
- 4
updated Jun 02, 2021
MANTIS: setup and rules 10 of 11 tasks completed

#15 · created Oct 15, 2020 by Valentina Galata Analysis & Binning updates enhancement feature installation
- 21
updated Mar 02, 2022
Docs: Trimmomatic adapters

#18 · created Nov 11, 2020 by Valentina Galata documentation
- 0
updated Nov 11, 2020
Preprocessing/trimming: cutadapt, nextseq

#21 · created Feb 09, 2021 by Valentina Galata bug
- 1
updated Feb 09, 2021
PathoFact: include latest version

#23 · created Mar 01, 2021 by Valentina Galata Analysis & Binning updates feature update
- 2
updated Feb 25, 2022
Bug: config tmp folder is ignored during rRNA filtering

#24 · created Jun 09, 2021 by Valentina Galata Overhaul bug
- 0
updated Oct 08, 2021
Feature/Doc: SE (metaT) as input

#25 · created Jul 08, 2021 by Valentina Galata documentation feature
- 2
updated Aug 23, 2021
Taxonomy: kraken2 on reads: combine PE and SE reads

#27 · created Jul 20, 2021 by Valentina Galata enhancement
- 9
updated Aug 19, 2021
Input/output: work with compressed FASTQ files

#31 · created Aug 17, 2021 by Valentina Galata discussion enhancement
- 6
updated Aug 18, 2021
Output: minimize output size

#32 · created Aug 17, 2021 by Valentina Galata discussion documentation enhancement feature
- 11
updated Aug 27, 2021
Config: use appropriate in-built data types 0 of 3 tasks completed

#35 · created Aug 20, 2021 by Valentina Galata Overhaul enhancement
- 3
updated Sep 24, 2021
Assembly: MG/MT assembly with MetaSPAdes

#36 · created Aug 23, 2021 by Valentina Galata enhancement feature
- 0
updated Aug 23, 2021
nonpareil: simplify the rule

#38 · created Aug 23, 2021 by Valentina Galata Overhaul enhancement
- 1
updated Feb 10, 2022
Configuration: configs, profiles and launchers

#41 · created Aug 27, 2021 by Valentina Galata Overhaul discussion enhancement
- 2
updated Apr 19, 2022
Formatting convention

#43 · created Aug 27, 2021 by Valentina Galata Overhaul discussion documentation enhancement
- 3
updated Oct 08, 2021
Unit testing, CI and merging

#45 · created Aug 27, 2021 by Valentina Galata Overhaul discussion enhancement test
- 1
updated Oct 26, 2021
Transcriptome assembly with rnaSPAdes

#46 · created Sep 10, 2021 by Valentina Galata bug
- 0
updated Sep 13, 2021
Conda envs: smaller YAML files

#47 · created Sep 13, 2021 by Valentina Galata Overhaul discussion enhancement
- 1
updated Feb 04, 2022
Unexpected behavior: `ancient` keyword may trigger Snakemake scheduler issues

#48 · created Sep 16, 2021 by Susheel Busi incident
- 0
updated Sep 16, 2021