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torognes
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vsearch
Versatile open-source tool for microbiome analysis
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vsearch tool detailed option in command line ?
#516
hafizmtalha
closed
6 months ago
5
Include new labels in uc output for dereplication if --relabel option provided
#515
chlige
closed
1 year ago
3
After combine two datasets together to recluster, some of the abundance of high-abundant OTUs were reduced dramatically.
#514
peiyaohu
opened
1 year ago
2
vsearch - usearch_global - maxhits only returns one hit
#513
vincenthahaut
closed
1 year ago
3
fastq_mergepairs Fatal error: More reverse reads than forward reads
#512
andrewd789
closed
1 year ago
6
Sintax sometimes only outputs the ID with no further columns
#511
Shellfishgene
closed
1 year ago
6
vsearch in R markdown issue
#510
js3110
closed
1 year ago
5
warnings with recent GCC (possible false-positives)
#509
frederic-mahe
closed
1 year ago
1
segmentation fault when printing out alignments
#508
frederic-mahe
closed
1 year ago
2
Can vsearch combine two clustered-otutab together?
#507
peiyaohu
closed
1 year ago
4
uchime_ref --db can't read from stdin
#506
frederic-mahe
closed
1 year ago
3
Add Edgar RC (2016) UNOISE2 to references
#505
peterjc
closed
1 year ago
1
Chimera detection --uchime_ref unexpected behaviour
#504
nvucic
opened
1 year ago
6
UNOISE not using Levenshtein distance?
#503
peterjc
closed
1 year ago
7
Missing options in `--orient`
#502
mirand863
closed
1 year ago
3
chimera detection: variable number of chunks
#501
frederic-mahe
closed
1 year ago
1
fastq --eeout: report more precise expected error values
#500
frederic-mahe
closed
1 year ago
3
question on edlib vs vsearch
#499
jianshu93
closed
1 year ago
2
More than 7 levels in sintax
#498
lokeshbio
opened
1 year ago
4
Check for SSSE3 should be build time, not run time.
#497
heshpdx
closed
1 year ago
3
Allow FASTQ files as input to more commands
#496
torognes
opened
1 year ago
0
vsearch search_global time complexity
#495
jianshu93
closed
1 year ago
2
sintax: should the command accept the --minseqlength option?
#494
frederic-mahe
closed
1 year ago
3
sintax: extra tab in tabbedout output when there is no match
#493
frederic-mahe
closed
1 year ago
3
Invalid line 28205492 in FASTQ file: Sequence and quality lines must be equally long
#492
elenu
closed
1 year ago
9
Perfect overlaps not getting merged together.
#491
FlintMitchell
closed
1 year ago
1
Large number of clusters with small number of sequences
#490
NenBarto
closed
1 year ago
1
vsearch fails to assign taxonomy for Fungi ITS seqs
#489
cam315
closed
2 years ago
2
Some questions about "Extraction options"
#488
Statistic-Qin
closed
1 year ago
4
Could vsearch Standardize the otu table and calculate the relative abundance of phyla, class, order, family and genus.
#487
Statistic-Qin
opened
2 years ago
4
Could I only output the names of query and target sequences when I use "--usearch_global" function?
#486
Statistic-Qin
closed
1 year ago
3
How is the expected error rate calculated?
#485
Statistic-Qin
closed
2 years ago
5
drop in replacement for usearch
#484
lskatz
closed
2 years ago
4
Definition of a read pair
#483
Username-felix-is-not-available
closed
2 years ago
3
global alignment and semi-global alignment
#482
jianshu93
closed
2 years ago
4
Recover info in fasta header when using sintax
#481
blex-max
closed
2 years ago
2
optimization flag is set to -O2
#480
frederic-mahe
closed
2 years ago
2
not all samples appear in OTU table
#479
michelledesontje
closed
1 year ago
2
error in swarm when clustering
#478
michelledesontje
closed
2 years ago
5
usearch_global shows different results for the same seq in different db files
#477
ClinicalAI
closed
1 year ago
4
derep_fulllength: empty output fasta file
#476
puekse
closed
2 years ago
7
Optional low memory mode for --derep_fulllength
#475
DominikBuchner
closed
1 year ago
6
support for Illumina RTA3 simplified quality scores?
#474
frederic-mahe
closed
2 years ago
1
Alignment using vsearch, how to output the sequence of the best hit?
#473
cberthelier
closed
2 years ago
3
derep_fulllength: handling of empty input files and streams
#472
frederic-mahe
closed
2 years ago
2
fix two GCC 10.2 format warnings
#471
frederic-mahe
closed
2 years ago
2
Fatal error: Invalid line 3 in FASTQ file: '+' line must be empty or identical to header
#470
kennyyeo13
closed
2 years ago
8
fastq_mergepairs randomly fails to finish when called in parallel
#469
fjossandon
closed
2 years ago
11
cite Edgar and Flyvbjerg (2015)
#468
frederic-mahe
closed
2 years ago
0
It seemed that vsearch don't have -otutab_stats function in usearch
#467
Achuan-2
opened
2 years ago
1
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