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Issues list

Request: Improved Documentation for Pipeline Input Files
#96 opened Apr 9, 2025 by CharlesARoy
1
prepare_annotation.py: error: unrecognized arguments: -o annotation.txt question Further information is requested
#91 opened Mar 10, 2025 by dgoswamia
8
With cpus=1, handle TSV post-processing safely bug Something isn't working
#90 opened Feb 27, 2025 by etal Next
Use Quarto instead of Rmarkdown
#88 opened Feb 26, 2025 by etal
Configure laava_dev as a proper development container (devcontainer)
#85 opened Feb 12, 2025 by etal Planned
Consolidate the output metadata TSV for multi-sample runs
#84 opened Feb 12, 2025 by etal
Nanopore reads, input convert it to FASTQ format question Further information is requested
#82 opened Feb 10, 2025 by dgoswamia
2
Include instrument name in output metadata TSV
#80 opened Feb 10, 2025 by etal Next
Question about the read length distribution for subtype graphs question Further information is requested
#79 opened Feb 4, 2025 by dlbowie0
9
Reduce laava Docker image size good first issue Good for newcomers
#76 opened Jan 30, 2025 by etal
5
Add vector_type to output metadata TSV
#59 opened Sep 20, 2024 by etal Next
2
Subset output BAMs following v3 semantics
#57 opened Sep 5, 2024 by etal Planned
Lambda normalization
#55 opened Aug 23, 2024 by etal
Option for circular genome alignment and counting
#54 opened Aug 15, 2024 by etal
Remove bin/ scripts in favor of native Nextflow and Python packaging
#49 opened Jul 12, 2024 by etal Next
1
Use pathlib for file/folder paths good first issue Good for newcomers
#48 opened Jul 11, 2024 by etal Planned
1
Use position-sorted BAM instead of name-sorted SAM after initial scan
#46 opened Jul 9, 2024 by etal
Implement subtype “reverse-packaging” for ITR-only vector+backbone
#42 opened Jun 24, 2024 by etal Next
Accept Sequence and Annotation as Genbank enhancement New feature or request
#26 opened Jun 1, 2024 by bcantarel
Python type annotations and static type checking good first issue Good for newcomers
#21 opened May 23, 2024 by etal 6750 Planned
Consolidate BED, FASTA file input validation
#20 opened May 23, 2024 by etal Planned
Enable/disable PDF and HTML report formats independently enhancement New feature or request
#16 opened May 22, 2024 by etal Planned
@etal
Feature request: more annotation in final report enhancement New feature or request
#12 opened May 13, 2024 by krobison13 Planned
2
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