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<prev • 519 results • page 1 of 18 • next >
2
votes
1
answer
78
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5 follow
1
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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 1 day ago by england_bioinformatics_team • 10 • updated 1 day ago by ATpoint • 3.5k
2
votes
2
answers
641
views
2
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bwa mem: Passing a variable to read group
variant calling bwa-mem alignment bwa gatk written 5 months ago by rmf • 230
0
votes
1
answer
728
views
1
answer
BWA shm index preloading: only for BWA MEM?
hengli bwa written 20 months ago by Maximilian Haeussler • 1.3k
8
votes
2
answers
8.2k
views
8 follow
2
answers
Soft-Clipped Vs Unmapped?
bwa written 6.1 years ago by Bioscientist • 1.6k • updated 10 days ago by fatima.m.zare • 10
3
votes
1
answer
110
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1
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increase BWA sensitivity
metagenomics bwa hg19 written 24 days ago by sacha • 1.1k • updated 24 days ago by h.mon ♦ 13k
10
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3
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228
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3
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Number of threads in BWA
ngs alignment bwa written 25 days ago by siyavash_damdar • 20 • updated 24 days ago by d-cameron • 1.5k
0
votes
0
answers
299
views
0
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Is it possible to import a count table into MEGAN?
featurecounts rna-seq bwa megan written 7 months ago by victor.gambarini • 30 • updated 26 days ago by katerinapargana • 0
1
vote
2
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162
views
2
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How to get percent identity from bam file ?
bam samtools bwa written 4 weeks ago by David • 70
4
votes
2
answers
223
views
7 follow
2
answers
bwa mem and multiply mapped reads
alignment bwa repetitive genome written 4 weeks ago by lfreeborn • 0 • updated 4 weeks ago by dariober ♦ 9.0k
0
votes
0
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108
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0
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bwa output : [bwa_aln_core] calculate SA coordinate... Killed
software error genome sequence bwa written 5 weeks ago by deepak.sharma • 0
10
votes
1
answer
2.9k
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1
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Two Fastq Files And Alignment With Bwa.
fastq alignment sam bwa written 6.4 years ago by KCC • 3.8k • updated 5 weeks ago by Biostar ♦♦ 20
0
votes
0
answers
113
views
0
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[bwa sai2sam_pe] fail to locate the index
bwa index written 6 weeks ago by genomics Newbie • 0
3
votes
2
answers
153
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2
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Parallel for bwa mem - problem with -R argument for ID and SM
parallel alignment bwa written 6 weeks ago by Korsocius • 80 • updated 6 weeks ago by Pierre Lindenbaum ♦ 106k
5
votes
2
answers
2.2k
views
6 follow
2
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Using parallel with Mem
mem parallel bwa written 4.0 years ago by always_learning • 870 • updated 6 weeks ago by Korsocius • 80
3
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0
answers
295
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0
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how to make bwa search the entire sequence?
alignment bwa written 3 months ago by Milan Simonovic • 20 • updated 6 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
192
views
1
answer
Creating a BWA index with an index_prefix
bwa index written 6 weeks ago by genomics Newbie • 0 • updated 6 weeks ago by genomax ♦ 46k
0
votes
2
answers
152
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2
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[mem_sam_pe] paired reads have different names. Without -p
alignment next-gen bwa written 8 weeks ago by windsur • 0
1
vote
0
answers
257
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0
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Page: BWA command guide
page bwa written 7 weeks ago by Chen • 650
10
votes
2
answers
3.2k
views
5 follow
2
answers
Indexing 34Gbp Reference Genomes With Bwa -A Bwtsw
bwa written 6.2 years ago by Ahdf-Lell-Kocks • 1.6k • updated 8 weeks ago by Biostar ♦♦ 20
0
votes
1
answer
163
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1
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Cannot align reads to plasmid
bwa sequencing written 9 weeks ago by David • 70 • updated 9 weeks ago by h.mon ♦ 13k
2
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1
answer
164
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1
answer
Does BWA mem work with uBAM file?
ubam bwa mem bwa align written 9 weeks ago by Abdul Rafay Khan • 780
1
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0
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212
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0
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what is the detailed information of .amb .ann .bwt .pac .sa files generated by the BWA aligner?
.bwt .sa alignment bwa .ann written 9 weeks ago by lffu_0032 • 0 • updated 9 weeks ago by WouterDeCoster ♦ 27k
1
vote
0
answers
204
views
0
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Decompress .bwt file and .sa file
alignment sa bwa bwt written 10 weeks ago by mrm259 • 0
1
vote
2
answers
223
views
5 follow
2
answers
Sensitive (BLAST like) and fast alignment of millions of sequences against human sized reference genomes
multicopy alignment lift over blast bwa written 10 weeks ago by William • 4.2k • updated 10 weeks ago by lieven.sterck • 1.1k
1
vote
1
answer
244
views
1
answer
bwa samtool giving empty bam files while piping
pipeing bam samtools bwa rna-seq written 11 weeks ago by Goku • 0 • updated 11 weeks ago by h.mon ♦ 13k
10
votes
2
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11k
views
5 follow
2
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Difference Between Mapped And Unmapped Reads
paired samtools bwa written 6.1 years ago by Ric • 100 • updated 11 weeks ago by Biostar ♦♦ 20
0
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0
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196
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0
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BWT in Bioinformatics
next-gen alignment bwa bwt written 11 weeks ago by shashankch9009 • 0 • updated 11 weeks ago by genomax ♦ 46k
0
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0
answers
139
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0
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Designed primers with 3 bp mutations (codons) how to validate/visualize them?
blast bwa primer written 11 weeks ago by morovatunc • 360
0
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0
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230
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0
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Is there something wrong with my Indel Calling protocol?
indel genome alignment bwa rna-seq written 3 months ago by lishen0709 • 0
3
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3
answers
2.9k
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5 follow
3
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Cufflinks Or Alternative From Bwa Alignments?
cufflinks bwa written 6.0 years ago by Biostar User • 350 • updated 3 months ago by Biostar ♦♦ 20
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