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3
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1
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144
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5 follow
1
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How does BWA MEM know where to put X and Y origin reads correctly?
bwa mem alignment genetics genomics written 6 weeks ago by s1667153 • 0 • updated 6 weeks ago by WouterDeCoster ♦ 39k
0
votes
1
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115
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1
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Should I use the same reference indexing command of bwa for WGS and WES analysis?
indexing wes bwa mem wgs written 11 weeks ago by maria2019 • 30 • updated 11 weeks ago by finswimmer ♦ 11k
1
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1
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243
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5 follow
1
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bwa mem low depth and fluctuating plot
bwa mem samtools written 8 months ago by ieie • 0 • updated 8 months ago by singh.vijender • 30
0
votes
0
answers
365
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0
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bwa mem cannot locate output bam file
bwa mem rna-seq written 9 months ago by alexadeanfitz • 10 • updated 9 months ago by ATpoint ♦ 17k
1
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1
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418
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1
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illumina data analysis with bwa mem
bwa mem written 11 months ago by bioguy24 • 190 • updated 11 months ago by Devon Ryan ♦ 90k
7
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1
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1.2k
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1
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bwa mem misaligns my contigs to the reference by a few bases
contig alignment bwa mem bwa bwt written 23 months ago by cristian • 220 • updated 11 months ago by Biostar ♦♦ 20
3
votes
1
answer
526
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1
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QC-passed reads in BWA aln and BWA mem
alignment bwa mem bwa qc-passed bwa aln written 13 months ago by kaiho • 10 • updated 13 months ago by swbarnes2 ♦ 5.8k
3
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1
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1.0k
views
1
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Does BWA mem work with uBAM file?
ubam bwa mem bwa align written 16 months ago by Abdul Rafay Khan • 1.0k
15
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0
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663
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5 follow
0
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Penalty model of BWA MEM and BOWTIE2?
bowtie2 alignment bwa mem rna-seq written 17 months ago by Jon • 90
22
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4
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4.8k
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10 follow
4
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Aligning paired end fastq files dumped from SRA
sra fastq bwa mem paired written 4.6 years ago by Zev.Kronenberg ♦ 11k • updated 18 months ago by seelament • 0
2
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1
answer
653
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1
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Mapping Illumina reads using BWA
assembly bwa mem mapping bwa sequencing written 18 months ago by James • 20 • updated 18 months ago by h.mon ♦ 25k
18
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3
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2.2k
views
3
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Lack of consensus between NGS & Sanger sequencing on indels/mutations
indel sanger ngs bwa mem variant calling written 3.6 years ago by alons • 270 • updated 19 months ago by Kevin Blighe ♦ 43k
2
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0
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1.2k
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0
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bwa mem segfault
segfault bwa mem bwa written 20 months ago by lindsay.liang • 10
13
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1
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716
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5 follow
1
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Is my file created completely
sam file bwa mem written 2.1 years ago by micro32uvas • 10 • updated 2.1 years ago by h.mon ♦ 25k
11
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1
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1.7k
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9 follow
1
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Oxford Nanopore BWA MEM alignments
long reads bwa mem bwa oxford nanopore written 2.1 years ago by QVINTVS_FABIVS_MAXIMVS • 2.2k • updated 2.1 years ago by WouterDeCoster ♦ 39k
11
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3
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2.0k
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3
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BWA mem output inconsistent on same but re-ordered FASTQ input
assembly alignment bwa mem tool bwa written 2.3 years ago by ramy • 10
0
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0
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2.5k
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0
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Mismatch setting for bwa mem ?
bwa mem mismatch written 2.4 years ago by Picasa • 410
4
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1
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982
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1
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Weird issue with bam file generated by samtools
samtools bam bwa mem written 2.4 years ago by Vijay Lakhujani ♦ 4.1k • updated 2.4 years ago by Devon Ryan ♦ 90k
1
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0
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969
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0
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BWA option for FR sens only
bwa mem written 2.5 years ago by Picasa • 410
2
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1
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1.0k
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1
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paired reads (headers) show up in 3 lines of sam file instead of expected 2
alignment bwa mem sam written 2.9 years ago by playerraa • 0 • updated 2.9 years ago by Damian Kao ♦ 15k
3
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2
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1.5k
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2
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How to identify the chromosome where the reads has the secondary (alternative alignments), after running bwa mem?
alignment bwa mem sam bam written 3.0 years ago by kirannbishwa01 • 1000 • updated 3.0 years ago by dariober ♦ 10k
4
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1
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1.4k
views
1
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insert size discrepencies using bwa backtrack and bwa mem
bwa-backtrack bwa mem insert written 3.0 years ago by urmi208 • 30 • updated 3.0 years ago by lh3 ♦ 31k
3
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1
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2.1k
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1
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calling BWA mem from within python
python bwa mem written 3.1 years ago by lien • 90 • updated 3.1 years ago by Picasa • 410
2
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0
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1.6k
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0
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parameters in bwa mem
parameters tools bwa mem bwa written 3.4 years ago by BioinfoNovice • 90
6
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0
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2.7k
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0
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Tool: Wham - a structural variant caller and association testing framework
gwas tool structural variant bam bwa mem genotype written 4.4 years ago by Zev.Kronenberg ♦ 11k
34
votes
1
answer
27k
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18 follow
1
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When and why is bwa aln better then bwa mem?
comparison bwa mem bwa aln written 4.6 years ago by dariober ♦ 10k • updated 4.6 years ago by Istvan Albert ♦♦ 80k
1
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0
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3.8k
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0
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bwa mem mismatch option
bwa mem written 4.7 years ago by Varun Gupta • 1.1k
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