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4
votes
1
answer
98
views
1
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bbduk truncated fastq file according to FastQC - help?
pe bbduk metagenome fastqc written 24 days ago by hannahfreund3 • 0 • updated 24 days ago by swbarnes2 ♦ 8.9k
3
votes
0
answers
140
views
0
answers
How to extract reads with exact match with BBDuk?
fastq bbduk rna-seq written 4 weeks ago by camelest • 10
0
votes
0
answers
136
views
0
answers
bbduk - trimming ITS primer sequence
bbduk its written 4 weeks ago by AfinaM • 0
0
votes
0
answers
119
views
0
answers
Please help about java error of BBDuk
java bbduk bbmap brian bushnel written 7 weeks ago by seta • 1.4k
3
votes
2
answers
364
views
2
answers
Question on bbduk ftl option when used with adapter and quality trimming
bbduk rna-seq written 11 months ago by tamu.anand • 10 • updated 9 weeks ago by DriesB • 90
4
votes
2
answers
163
views
2
answers
Removing UniVec sequences in Assembly
assembly tsa bbduk rna-seq cutadapt written 4 months ago by jfo • 40 • updated 4 months ago by genomax ♦ 91k
0
votes
1
answer
3.5k
views
1
answer
Read trimming with BBDuk
read trimming bbduk bbmap written 3.5 years ago by seta • 1.4k • updated 5 months ago by Biostar ♦♦ 20
2
votes
1
answer
146
views
1
answer
bbduk fails to output histograms for random files
bbduk bbtools written 8 months ago by heso • 40
1
vote
0
answers
284
views
0
answers
bbsplit not using all reads in library
bbmap bbduk bbsplit rna-seq written 9 months ago by ghd1998 • 0
10
votes
2
answers
313
views
6 follow
2
answers
Interpreting bbduk histogram headers and contents
bbduk bbmap histograms written 11 months ago by gnmcsbnfrmtcsclb • 30 • updated 11 months ago by harold.smith.tarheel • 4.6k
2
votes
0
answers
440
views
0
answers
bbduk flags 'tossbrokenreads' and 'nullifybrokenquality'
bbduk bbmap flags written 12 months ago by Anand Rao • 320 • updated 12 months ago by michael.ante • 3.6k
1
vote
0
answers
596
views
0
answers
BBDuk does not remove all adapters
trimming bbduk rna-seq truseq adapters written 13 months ago by f.dinesh • 0 • updated 13 months ago by genomax ♦ 91k
2
votes
0
answers
506
views
0
answers
How does bbduk calculate it's memory requirements?
bbduk docker memory written 17 months ago by Lina F • 190
2
votes
0
answers
490
views
5 follow
0
answers
How to hide console output from BBduk
bbduk written 2.1 years ago by bnorris823 • 0 • updated 18 months ago by hobi • 0
2
votes
1
answer
1.1k
views
1
answer
Java error message when using BBDuk
genome java bbduk qc bbtools written 19 months ago by c.e.chong • 20 • updated 19 months ago by genomax ♦ 91k
1
vote
1
answer
816
views
1
answer
Bulk quality interleaving with bbmap reformat command
reformat loop bbduk bbmap bash written 23 months ago by Longshotx • 50 • updated 20 months ago by ross_whetten • 10
2
votes
0
answers
1.1k
views
0
answers
error running bbduk to trim primers
bbduk primer trimming written 21 months ago by caverill • 40
8
votes
1
answer
1.1k
views
5 follow
1
answer
BBDuk.sh and BBDuk2.sh barcodefilter does not filter the reads
barcode fastq bbduk bbmap illumina index written 22 months ago by chilifan • 70
2
votes
0
answers
695
views
0
answers
Removing vector sequences from pacbio BAM files
sequence pac bio bbduk written 2.1 years ago by bnorris823 • 0
4
votes
1
answer
671
views
1
answer
BBduk ftm parameter
parameters bbduk written 2.2 years ago by lieven.sterck ♦ 8.7k
2
votes
1
answer
696
views
1
answer
Metagenomics: rationale behind Q trimming
illumina metagenomics bbduk quality trimming written 2.3 years ago by f.a.galkin • 40 • updated 2.3 years ago by finswimmer ♦ 13k
2
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1
answer
1.3k
views
1
answer
Using BBDuk to trim degenerate primers off of amplicon reads
bbduk written 2.4 years ago by t89oconnell • 10 • updated 2.4 years ago by genomax ♦ 91k
3
votes
0
answers
1.2k
views
6 follow
0
answers
kmer content failling with fastqc
illumina ngs bbduk trimming adaptor trimming written 2.4 years ago by slimane.khayi • 40
0
votes
1
answer
1.2k
views
1
answer
Poly A trimming from RNA-seq data by bbduk (bbmap package)
polya trimming bbduk bbmap rna-seq written 2.4 years ago by seta • 1.4k • updated 2.4 years ago by WouterDeCoster ♦ 44k
2
votes
1
answer
1.3k
views
1
answer
BBDuk output different sized paired end reads
preprocessing bbduk bbmap written 2.5 years ago by GLFrey • 20 • updated 2.5 years ago by h.mon ♦ 31k
0
votes
1
answer
889
views
1
answer
bbduk for pre-processing
reads pre-processing bbduk bbmap written 2.9 years ago by deepti1rao • 30 • updated 2.9 years ago by genomax ♦ 91k
1
vote
1
answer
1.8k
views
5 follow
1
answer
Sequence length distribution after adapter trimming
adapter trimming bbduk fastqc written 3.1 years ago by lamteva.vera • 200
14
votes
0
answers
3.0k
views
6 follow
0
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HiSeq 4000 PhiX screening and removal using bbduk
spikein bbduk bbmap filtering phix written 3.2 years ago by Anand Rao • 320
15
votes
1
answer
8.5k
views
15 follow
1
answer
Differences between trimming tools: cutadapt, bbduk and sickle
trimming bbduk sickle cutadapt written 3.5 years ago by rioualen • 460
1
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0
answers
1.4k
views
0
answers
Preprocessing RNA-seq data with BBDuk
adapter trimming bbduk quality trimming rna-seq written 3.6 years ago by Lucila • 20
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