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Showing : bbmap • reset
3
Votes
2
Replies
137
Views
Keep only reads where both map using BBTools
bbtools bbmap
22 months ago
dylan.lawrence • 10 • updated 22 months ago
genomax 68k
64
Votes
63
Replies
9.9k
Views
13 follow
Tool: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remove duplicates.
compression bbmap clumpify pigz storage Tool
4.1 years ago
Brian Bushnell 16k • updated 22 months ago
snishtala03 • 10
6
Votes
13
Replies
320
Views
6 follow
Clumpify Input via Process Substitution
bbmap clumpify
22 months ago
dario.garvan • 450
1
Vote
3
Replies
335
Views
Bulk quality interleaving with bbmap reformat command
bbmap bbduk reformat bash loop
2.1 years ago
infenit101 • 20 • updated 23 months ago
ross_whetten • 10
7
Votes
8
Replies
445
Views
BBDuk.sh and BBDuk2.sh barcodefilter does not filter the reads
BBMap BBDuk barcode illumina index fastq
2.0 years ago
chilifan • 70
0
Votes
4
Replies
256
Views
Simultaneous multiple read recruitment with BBMap?
BBMap mapping
2.0 years ago
Rebecs Garner • 0
1
Vote
7
Replies
879
Views
java.lang.OutOfMemoryError: Java heap space not solve with -Xmx
bbmap repair.sh paired-end OutOfMemoryError Xmx
2.0 years ago
mb2subi • 0
0
Votes
18
Replies
450
Views
BBMap randomreads.sh exact path to ref error: Could not find or load main class
BBMap Java
2.1 years ago
Tawny • 130
0
Votes
1
Reply
291
Views
BBMAP fails to find secondary alignment
bbmap secondary
2.2 years ago
mark.rose • 30 • updated 2.2 years ago
Biostar 20
1
Vote
6
Replies
325
Views
BBMAP paired end alignment problem
BBMAP bbmap align paired-end
2.2 years ago
mark.rose • 30 • updated 2.2 years ago
h.mon 25k
2
Votes
3
Replies
284
Views
Tadpole assembler header
bbmap bbtools tadpole
2.2 years ago
h.mon 25k
1
Vote
5
Replies
904
Views
bbmap split paired-end reads back into separated fastq files?
genome bbmap next-gen sequencing alignment
2.3 years ago
c.e.chong • 10 • updated 2.3 years ago
genomax 68k
5
Votes
6
Replies
383
Views
Have bbduk retain quality scores in output after kmer trimming
trim primer bbmap
2.3 years ago
caverill • 40
15
Votes
28
Replies
3.3k
Views
Tool: Introducing FilterByTile: Remove Low-Quality Reads Without Adding Bias
quality filtering BBMap filterbytile Illumina Tool
4.1 years ago
Brian Bushnell 16k • updated 2.4 years ago
AllisonAnne • 0
0
Votes
7
Replies
296
Views
randomreads.sh simulated reads dont map to genome
bbmap
2.5 years ago
grant.hovhannisyan ♦ 1.5k
2
Votes
8
Replies
241
Views
randomreads.sh simulated mates are far away
bbmap
2.5 years ago
grant.hovhannisyan ♦ 1.5k • updated 2.5 years ago
h.mon 25k
5
Votes
3
Replies
630
Views
paired-end reads in BBMap randomreads.sh
randomreads BBMap
2.6 years ago
grant.hovhannisyan ♦ 1.5k • updated 2.6 years ago
genomax 68k
0
Votes
1
Reply
356
Views
BBMAP mapping Algorithm explanation: HELP!
mapping bbmap NGS alignment
2.7 years ago
midox • 220 • updated 2.7 years ago
genomax 68k
0
Votes
4
Replies
604
Views
Poly A trimming from RNA-seq data by bbduk (bbmap package)
polyA trimming RNA-seq bbduk bbmap
2.7 years ago
seta ♦ 1.2k • updated 2.7 years ago
WouterDeCoster 39k
0
Votes
7
Replies
444
Views
calctruequality in bbmap
Assembly BBtools calctruequality q score BBmap
2.7 years ago
coyk • 0
0
Votes
5
Replies
578
Views
SSPACE for scaffolding
sspace scaffolding contigs insert size bbmap
2.7 years ago
deepti1rao • 20 • updated 2.7 years ago
RamRS 21k
1
Vote
5
Replies
660
Views
BBDuk output different sized paired end reads
bbmap bbduk preprocessing
2.7 years ago
GLFrey • 20 • updated 2.7 years ago
h.mon 25k
2
Votes
7
Replies
808
Views
BBMap genome indexing - java issue?
BBMap java indexing
2.8 years ago
CAnna • 20
1
Vote
4
Replies
546
Views
Metagenome Read Simulators
metagenomics simulation WGS BBmap
2.8 years ago
alesssia • 520
2
Votes
2
Replies
956
Views
bbmap callvariants - how to add sample names, how to get 0/0 alleles back?
bbmap callvariants.sh
2.9 years ago
Philipp Bayer 6.1k
0
Votes
8
Replies
731
Views
bbmap paired-end alignment problem
bbmap align paired-end
2.9 years ago
mark.rose • 30
1
Vote
3
Replies
580
Views
bbduk: quality filtering and singletons
bbmap genome reads
3.0 years ago
rororo • 0
1
Vote
7
Replies
942
Views
BBMap output meaning
bbmap rnaseq
3.2 years ago
Tania • 120 • updated 3.0 years ago
Biostar 20
3
Votes
7
Replies
1.1k
Views
Why different rna-seq aligners need to be used for Ion Torrent data compared with illumina?
RNA-Seq tophat hisat2 bbmap mira
3.1 years ago
Vasu • 330 • updated 3.1 years ago
h.mon 25k
4
Votes
5
Replies
496
Views
Generate artificial reads
bbmap fastq randomreads
3.1 years ago
finswimmer 11k • updated 3.1 years ago
Joe 12k
0
Votes
3
Replies
637
Views
bbduk for pre-processing
bbduk bbmap reads pre-processing
3.2 years ago
deepti1rao • 20 • updated 3.2 years ago
genomax 68k
1
Vote
0
Replies
678
Views
Problem in doing reference based alignment using BBMap
bbmap alignment Assembly
3.2 years ago
assem_new • 10
2
Votes
2
Replies
1.9k
Views
Tool: Introducing CrossBlock, a BBTool for removing cross-contamination
Contamination Tool bbmap crossblock mda
4.0 years ago
Brian Bushnell 16k • updated 3.2 years ago
awwood • 0
0
Votes
2
Replies
705
Views
aligning Illumina mate-pair/ log mate pair libraries using BBMAP
bbmap alignment
3.2 years ago
bio_d • 0
14
Votes
17
Replies
2.0k
Views
HiSeq 4000 PhiX screening and removal using bbduk
spikein filtering bbmap bbduk phix
3.4 years ago
Anand Rao • 210
6
Votes
9
Replies
837
Views
Pipe BBMap reformat output into SAMtools
bbmap samtools pipe
3.5 years ago
bruce.moran • 610
2
Votes
3
Replies
638
Views
dedupe.sh from bbmap excludes contigs with insufficient overlap
dedupe bbmap contig assembly
3.5 years ago
cristian • 220
15
Votes
6
Replies
3.7k
Views
Tool: BBSketch - A Tool for Rapid Sequence Comparison
minhash bbmap blast sketch Tool
3.6 years ago
Brian Bushnell 16k
0
Votes
2
Replies
661
Views
Simulated overlapping paired end reads for 16S
bbmap
3.6 years ago
David • 150
1
Vote
7
Replies
762
Views
Extension of reads
sequence samtool BBMap
3.6 years ago
madhu.9124 • 40
1
Vote
4
Replies
897
Views
BBMap: Number of reads out does not add up to number of reads in
bbmap
3.7 years ago
Sinji ♦ 2.8k
0
Votes
5
Replies
2.2k
Views
Read trimming with BBDuk
bbduk read trimming bbmap
3.7 years ago
seta ♦ 1.2k • updated 3.7 years ago
genomax 68k
3
Votes
7
Replies
843
Views
Does BBMap not include headers in BAM files?
bbmap
3.7 years ago
Sinji ♦ 2.8k
4
Votes
9
Replies
1.2k
Views
dedupe from BBMAP suite woes with memory and stdout
bbmap dedupe linux duplicates fastq
3.9 years ago
ALchEmiXt ♦ 1.9k • updated 3.9 years ago
Brian Bushnell 16k
5
Votes
26
Replies
1.5k
Views
6 follow
Contamination in assembly
Assembly bbmap bbsplit
3.9 years ago
elena.syp • 0 • updated 3.9 years ago
vmicrobio • 240
0
Votes
6
Replies
1.0k
Views
bbmap: Order of reference genomes seems to matter
bbmap mapping illumina
3.9 years ago
mschmid • 90
0
Votes
1
Reply
868
Views
how to use bbnorm to subset the data
rna-seq Assembly bbmap bbnorm
3.9 years ago
wu.zhiqiang.1020 • 20 • updated 3.9 years ago
genomax 68k
3
Votes
11
Replies
797
Views
Pilon and BBMap generate VCf file where are chromosome names seem to be absent, how to fix that?
pilon bbmap annotation vcf
4.0 years ago
human_genomeXXX • 10
0
Votes
4
Replies
879
Views
How to reduce annotation errors using SNPEff on BBMap`s and Pilon`s VCFs?
snpeff vcf bbmap pilon
4.0 years ago
human_genomeXXX • 10
0
Votes
5
Replies
739
Views
Using BBMap for ChIP-seq data
bbmap ChIP-Seq
4.0 years ago
Bioradical • 50
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