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bwa mem mismatch option
bwa mem written 5.2 years ago by Varun Gupta • 1.1k
39
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1
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29k
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20 follow
1
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When and why is bwa aln better then bwa mem?
comparison bwa mem bwa aln written 5.1 years ago by dariober ♦ 10k • updated 5.1 years ago by Istvan Albert ♦♦ 81k
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4
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5.1k
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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 5.0 years ago by Zev.Kronenberg ♦ 11k • updated 24 months ago by seelament • 0
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Tool: Wham - a structural variant caller and association testing framework
gwas tool structural variant bam bwa mem genotype written 4.9 years ago by Zev.Kronenberg ♦ 11k
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3
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2.4k
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3
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Lack of consensus between NGS & Sanger sequencing on indels/mutations
indel sanger ngs bwa mem variant calling written 4.0 years ago by alons • 270 • updated 2.1 years ago by Kevin Blighe ♦ 52k
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1.7k
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parameters in bwa mem
parameters tools bwa mem bwa written 3.8 years ago by BioinfoNovice • 100
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2.7k
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1
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calling BWA mem from within python
python bwa mem written 3.5 years ago by lien • 90 • updated 3.5 years ago by Picasa • 480
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1
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1.5k
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1
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insert size discrepencies using bwa backtrack and bwa mem
bwa-backtrack bwa mem insert written 3.5 years ago by urmi208 • 30 • updated 3.5 years ago by lh3 ♦ 31k
3
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2
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1.6k
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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 3.5 years ago by kirannbishwa01 • 1.1k • updated 3.5 years ago by dariober ♦ 10k
2
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1
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1.1k
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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 3.4 years ago by raplayer • 10 • updated 3.4 years ago by Damian Kao ♦ 15k
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1.1k
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BWA option for FR sens only
bwa mem written 3.0 years ago by Picasa • 480
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1
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1.1k
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1
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Weird issue with bam file generated by samtools
samtools bam bwa mem written 2.9 years ago by lakhujanivijay ♦ 4.6k • updated 2.9 years ago by Devon Ryan ♦ 93k
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Mismatch setting for bwa mem ?
bwa mem mismatch written 2.9 years ago by Picasa • 480
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3
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2.4k
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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 2.8 years ago by ramy • 10
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1
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1.9k
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9 follow
1
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Oxford Nanopore BWA MEM alignments
long reads bwa mem bwa oxford nanopore written 2.6 years ago by QVINTVS_FABIVS_MAXIMVS • 2.3k • updated 2.6 years ago by WouterDeCoster ♦ 42k
13
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1
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790
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5 follow
1
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Is my file created completely
sam file bwa mem written 2.6 years ago by micro32uvas • 10 • updated 2.6 years ago by h.mon ♦ 28k
8
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1
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1.5k
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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 2.4 years ago by cristian • 240 • updated 17 months ago by Biostar ♦♦ 20
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1.5k
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bwa mem segfault
segfault bwa mem bwa written 2.2 years ago by lindsay.liang • 10
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1
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1
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Mapping Illumina reads using BWA
assembly bwa mem mapping bwa sequencing written 2.0 years ago by James • 20 • updated 2.0 years ago by h.mon ♦ 28k
15
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0
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837
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5 follow
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Penalty model of BWA MEM and BOWTIE2?
bowtie2 alignment bwa mem rna-seq written 23 months ago by Jon • 160
3
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1
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1.3k
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1
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Does BWA mem work with uBAM file?
ubam bwa mem bwa align written 22 months ago by Abdul Rafay Khan • 1.1k
3
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1
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745
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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 19 months ago by kai • 10 • updated 19 months ago by swbarnes2 ♦ 7.0k
1
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1
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546
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1
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illumina data analysis with bwa mem
bwa mem written 16 months ago by bioguy24 • 190 • updated 16 months ago by Devon Ryan ♦ 93k
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510
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bwa mem cannot locate output bam file
bwa mem rna-seq written 15 months ago by alexadeanfitz • 10 • updated 15 months ago by ATpoint ♦ 26k
1
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1
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347
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5 follow
1
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bwa mem low depth and fluctuating plot
bwa mem samtools written 14 months ago by ieie • 10 • updated 14 months ago by singh.vijender • 30
0
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1
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242
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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 8 months ago by maria2019 • 50 • updated 8 months ago by finswimmer ♦ 13k
3
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1
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289
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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 7 months ago by s1667153 • 0 • updated 7 months ago by WouterDeCoster ♦ 42k
3
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0
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327
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bwa mem -R (RGline) format for DNBseq fastq
wgs dnbseq bwa mem fastq bwa written 3 months ago by joe • 130 • updated 6 weeks ago by Biostar ♦♦ 20
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