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76 Open 148 Closed
76 Open 148 Closed
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Issues list

0 depth reported across many genes in the pandora consensus bug
#357 opened Sep 17, 2024 by Danderson123
Request for new release
#356 opened Aug 23, 2024 by Danderson123
1
Remove kmer_covgs.txt and kmer_probs.txt from pandora map/compare output
#350 opened Nov 10, 2023 by leoisl
Downgrade log level from warning to info for "[warning] Could not find reference sequence for <gene> in the PRG so using the consensus path"
#349 opened Nov 8, 2023 by leoisl
Pandora mapping is slow
#347 opened Oct 18, 2023 by iqbal-lab
4
Add seed parameter for the random subcommand
#341 opened Jul 19, 2023 by leoisl
Remove --max-covg param
#340 opened Jul 19, 2023 by leoisl
How to treat the genomes which come from the same source? for instance if three samples are biological replicates.
#338 opened Jul 18, 2023 by Isoris
2
Refactor common default CLI argument values
#336 opened Jul 17, 2023 by leoisl
Investigate making pandora to compile on Mac
#334 opened Jul 4, 2023 by leoisl
2
Incorrect mapping of a read to an incorrect gene as the true gene has no minimizer hits (with minimal example)
#333 opened Jun 29, 2023 by Danderson123
Incorrect annotation of one gene as another due to tight clustering of minimizer hits (with minimal example)
#332 opened Jun 29, 2023 by Danderson123
1
Issue while choosing the reference path for genotyping
#329 opened May 26, 2023 by AmayAgrawal
4
Improving cluster size threshold choice
#328 opened Feb 23, 2023 by leoisl
1
Inferred VCF ref for a PRG does not match a start-to-end PRG path minor bug
#324 opened Jan 31, 2023 by leoisl
Runtime for pandora compare
#323 opened Jan 25, 2023 by AmayAgrawal
6
Add --compression-level parameter to pandora index subcommand
#319 opened Jan 12, 2023 by leoisl
Understanding Genotype output in the VCF file generated using Pandora map and compare
#317 opened Dec 30, 2022 by AmayAgrawal
6
Investigate pandora failing to map reads at the edge of a gene
#316 opened Dec 20, 2022 by leoisl
3
Improve pandora discovery RAM usage
#315 opened Dec 8, 2022 by leoisl
1
Broad roadmap of next features
#312 opened Nov 21, 2022 by leoisl
3
Improving indexing and mapping performance with low cost
#311 opened Nov 21, 2022 by leoisl
3
Exploring removing path from pandora index and on-demanding loading of PRGs
#309 opened Nov 17, 2022 by leoisl
Handling huge indexes with few GBs of RAM
#304 opened Nov 8, 2022 by leoisl
@leoisl
1
Logging performance of de novo variant discovery with racon
#303 opened Oct 31, 2022 by leoisl
5
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