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<prev • 533 results • page 1 of 18 • next >
5
votes
1
answer
86
views
1
answer
How to extract aligned exactly 1 time in Single end read?
bowtie2 alignment bwa written 2 days ago by star • 60 • updated 2 days ago by zx8754 ♦ 4.5k
5
votes
3
answers
134
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6 follow
3
answers
Does BWA mem ever edit data
bwa written 4 days ago by e.benn • 0 • updated 3 days ago by h.mon ♦ 15k
4
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0
answers
66
views
0
answers
no exact read?
R alignment chip-seq bwa bowtie2 written 3 days ago by star • 60
8
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3
answers
98
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6 follow
3
answers
BWA (mem, sampe, or aln) used in bam file
bam bwa sequencing written 4 days ago by rborges • 50
3
votes
1
answer
152
views
1
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Why does inclusion of decoy sequences cause more BWA alignments to an autosome?
hs37d5 bwa written 23 days ago by pamela.russell.ucdenver • 20
1
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0
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111
views
0
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extracting orphan reads from bam file
bam file samtools bwa orphan reads sa flag written 4 weeks ago by Assa Yeroslaviz • 1.1k
1
vote
1
answer
98
views
1
answer
problem for setting BWA arguments for alignment
alignment rna-seq bwa sequencing written 4 weeks ago by modarzi • 20 • updated 4 weeks ago by toralmanvar • 330
0
votes
0
answers
111
views
0
answers
Trying to get consensus sequence from paired end alignment
paired-end alignment samtools bwa written 4 weeks ago by Sus • 0
3
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0
answers
114
views
0
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Benchmarking single SNP mapping
snps bowtie wgsim bwa mapping written 6 weeks ago by Josh Herr ♦ 5.5k • updated 5 weeks ago by Biostar ♦♦ 20
3
votes
1
answer
159
views
1
answer
QC-passed reads in BWA aln and BWA mem
alignment bwa mem bwa qc-passed bwa aln written 5 weeks ago by kaiho • 10 • updated 5 weeks ago by swbarnes2 ♦ 3.6k
0
votes
1
answer
172
views
1
answer
Peak calling with MACS for paired end DNase-seq data
macs2 paired-end dna-seq bwa written 6 weeks ago by Bioinformatist Newbie • 220 • updated 6 weeks ago by igor ♦ 6.2k
4
votes
1
answer
1.6k
views
1
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Why there is huge difference in mapping quality with bwa & bowtie
next-gen alignment samtools bwa bowtie written 3.5 years ago by Govardhan Anande • 130 • updated 6 weeks ago by Biostar ♦♦ 20
0
votes
1
answer
125
views
1
answer
How to unique bwa mem reads?
unique reads bwa single cell atac-seq written 7 weeks ago by niu.shengyong • 30
0
votes
1
answer
96
views
1
answer
getting bwa to ignore some parts of a read
illumina bwa written 7 weeks ago by Fedster • 0 • updated 7 weeks ago by swbarnes2 ♦ 3.6k
5
votes
2
answers
149
views
2
answers
mapping form different lane
ngs bwa written 7 weeks ago by siyavash_damdar • 20 • updated 7 weeks ago by swbarnes2 ♦ 3.6k
2
votes
1
answer
160
views
5 follow
1
answer
Are there any GNU parallel or similar Shell/Bash code examples on how to run Snap and BWA aligners on a batch of paired .fastq files?
snap parallel shell gnu bwa written 8 weeks ago by england_bioinformatics_team • 10 • updated 8 weeks ago by ATpoint • 4.3k
4
votes
2
answers
921
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2
answers
bwa mem: Passing a variable to read group
variant calling bwa-mem alignment bwa gatk written 7 months ago by rmf • 270
0
votes
1
answer
806
views
1
answer
BWA shm index preloading: only for BWA MEM?
hengli bwa written 22 months ago by Maximilian Haeussler • 1.3k
8
votes
2
answers
8.3k
views
8 follow
2
answers
Soft-Clipped Vs Unmapped?
bwa written 6.3 years ago by Bioscientist • 1.6k • updated 9 weeks ago by fatima.m.zare • 20
3
votes
1
answer
154
views
1
answer
increase BWA sensitivity
metagenomics bwa hg19 written 11 weeks ago by sacha • 1.2k • updated 11 weeks ago by h.mon ♦ 15k
13
votes
3
answers
336
views
3
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Number of threads in BWA
ngs alignment bwa written 11 weeks ago by siyavash_damdar • 20 • updated 11 weeks ago by d-cameron • 1.7k
0
votes
0
answers
378
views
0
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Is it possible to import a count table into MEGAN?
featurecounts rna-seq bwa megan written 9 months ago by victor.gambarini • 30 • updated 11 weeks ago by katerinapargana • 0
1
vote
2
answers
262
views
2
answers
How to get percent identity from bam file ?
bam samtools bwa written 12 weeks ago by David • 80
5
votes
2
answers
359
views
7 follow
2
answers
bwa mem and multiply mapped reads
alignment bwa repetitive genome written 3 months ago by lfreeborn • 0 • updated 12 weeks ago by dariober ♦ 9.1k
0
votes
0
answers
170
views
0
answers
bwa output : [bwa_aln_core] calculate SA coordinate... Killed
software error genome sequence bwa written 3 months ago by deepak.sharma • 0
10
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1
answer
3.0k
views
1
answer
Two Fastq Files And Alignment With Bwa.
fastq alignment sam bwa written 6.6 years ago by KCC • 3.9k • updated 3 months ago by Biostar ♦♦ 20
0
votes
0
answers
210
views
0
answers
[bwa sai2sam_pe] fail to locate the index
bwa index written 3 months ago by genomics Newbie • 0
3
votes
2
answers
244
views
2
answers
Parallel for bwa mem - problem with -R argument for ID and SM
parallel alignment bwa written 3 months ago by Korsocius • 80 • updated 3 months ago by Pierre Lindenbaum ♦ 108k
5
votes
2
answers
2.4k
views
6 follow
2
answers
Using parallel with Mem
mem parallel bwa written 4.2 years ago by always_learning • 890 • updated 3 months ago by Korsocius • 80
3
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0
answers
353
views
0
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how to make bwa search the entire sequence?
alignment bwa written 5 months ago by Milan Simonovic • 20 • updated 3 months ago by Biostar ♦♦ 20
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