DerrickWood kraken2 issues

DerrickWood / kraken2

The second version of the Kraken taxonomic sequence classification system

MIT License

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issues

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Parallel manifest.txt file download for rsync_from_ncbi.pl

#890 jonathancosme opened 1 day ago
7
Pear (pyrus) genomes classified as apple (malus)

#889 CeciliaDeng closed 2 days ago
4
Empty fields in Kraken2 report file generated with version 2.1.3 and PlusPF database break Bracken downstream analysis

#888 Seb-vb opened 1 week ago
0
High Memory Usage (1TB) for Creating a Kraken2 Database with 400GB of Genomes

#887 florian-labadie opened 2 weeks ago
1
Unable to download Viral Library

#886 catastrophicmuch99 opened 2 weeks ago
0
First non-comment line in pluspf_20240904 inspect.txt is truncated

#885 yeemey opened 2 weeks ago
0
Custom DB and custom taxonomy (GTDB or similar)

#884 osvatic opened 1 month ago
5
kraken2 2.1.9 empty taxonomic level field in k2report

#883 GODCALLMEGOD opened 1 month ago
1
18S, ITS, COI and chloroplast data analysis with kraken2

#882 mars188 opened 1 month ago
0
Kraken 2 finds spurious minimizers after ambiguous regions

#881 jtnystrom opened 2 months ago
0
Viral Refseq outdated on more than year in comparison with ICTV VMR.39

#880 igortru opened 2 months ago
0
fix: exclude ambiguous bases from confidence scoring calculation

#879 mcolpus opened 2 months ago
0
Ambiguous bases being included in confidence score calculation

#878 mcolpus opened 2 months ago
1
Support zstd input

#877 mbhall88 opened 2 months ago
0
Weather could provide a method for comparing multiple samples at once

#876 PingWang7 opened 2 months ago
3
Use of 16S Data with the Kraken2 Database

#875 christopherwilliamlee opened 2 months ago
1
Parameters for database construction and classification with Nanopore v14 chemistry

#874 rjsorr opened 3 months ago
0
Issue with plusPFP download

#873 ShaktiprasadM closed 3 months ago
1
How to Extract Specific Genomes or Full-Length rRNA Sequences from kraken2 PlusPF Database

#872 chenlipeng2019 opened 3 months ago
0
Is there a way to extract the kmers of a specific species from the Kraken2 database?

#871 wangzhichao1990 opened 3 months ago
0
make: *** src: No such file or directory. Stop.

#870 lauraelf opened 3 months ago
3
Error in kraken2 with taxpasta

#869 brockels closed 3 months ago
3
Taxon assignment report not adding up to 100%

#868 antantjuju opened 3 months ago
0
database being used

#867 chrissy005 closed 3 months ago
2
Use user provided thread count for masking

#866 ChillarAnand closed 3 months ago
0
Unable to find k2mask in path, can't mask low-complexity sequences

#865 zrf-cp opened 3 months ago
1
Merge two Kraken databases?

#864 Pablo-UY opened 3 months ago
2
Avoid sequence ID map to Taxon

#863 juanjo255 opened 3 months ago
0
Species-level 16S kraken2 database?

#862 DntBScrdDv opened 3 months ago
5
Kraken2 classified first read of the pair and not the other each time when both names are supplied

#861 kaydadaemon opened 3 months ago
5
Unable to install Kraken 2 and bracken on my Mac using conda

#860 chrissy005 closed 3 months ago
2
Issue with `k2 add-to-library`

#859 ChillarAnand opened 3 months ago
13
Why is `k2mask` set to use only half the number of available cores?

#858 hermidalc opened 3 months ago
5
Make `k2` wrapper script available in `$PATH` in the Bioconda `kraken2` package

#857 hermidalc opened 3 months ago
1
scan_fasta_file.pl: unable to determine taxonomy ID for sequence

#856 amara86 opened 3 months ago
1
`k2mask` is only single-threaded even with `--threads` and `OMP_NUM_THREADS` set properly

#855 hermidalc closed 3 months ago
8
how to update existing build?

#854 elbriandominguez opened 4 months ago
3
Missing species in inspect file after database build

#853 ksavhughes opened 4 months ago
1
Unable to build db.

#852 abskumar opened 4 months ago
9
#No preliminary seqid/taxid mapping files found, aborting.

#851 SamridhiVerma07 opened 4 months ago
2
implement @togop's fix for Rsync error: issue 518

#850 xonq opened 4 months ago
0
Test results did not meet expectations

#849 hedy-ella opened 4 months ago
0
Is there a matched names.dmp and nodes.dmp file for the pre-built Kraken2 database

#848 PandengWang opened 4 months ago
4
Return of the FTP error- rsync_from_ncbi.pl: unexpected FTP path (new server?)

#847 Madeleine-Meyer opened 4 months ago
6
can get mapped region in output result?

#846 jyl-hb closed 4 months ago
5
Terminal disappears automatically when runs classification command

#845 pratibha-kadam opened 4 months ago
2
Kraken2 does not add to the custom library *every* downloaded sequence

#844 LeandroD94 closed 5 months ago
6
Interleaved Fastq input

#843 WEClarke opened 5 months ago
0
discrepancy between Kraken results and BLAST hits

#842 kuldeepmore10 opened 5 months ago
4
Low minimizer count in prebuilt NT Database leading to unclassified reads

#841 remondulos opened 5 months ago
0