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12
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1
answer
3.4k
views
1
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What are contig, singleton read and discordant mate pairs?
singleton reads contig discordant mate pairs written 3.4 years ago by MAPK • 1.4k • updated 10 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
166
views
1
answer
Get protein domain information from nucleotide sequence of assembled contigs?
domain contig proteins hmmpred interprp written 11 weeks ago by DanielC • 90 • updated 11 weeks ago by lieven.sterck ♦ 5.5k
0
votes
0
answers
162
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0
answers
Quast shows different reads count for the same fastq file?
reads fastq contig quast written 3 months ago by DanielC • 90
2
votes
3
answers
378
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3
answers
How calculate CG content for each contig in an transcript assembly?
cg content assembly contig rna-seq transcriptome written 6 months ago by luzglongoria • 20 • updated 6 months ago by lakhujanivijay ♦ 4.2k
4
votes
1
answer
315
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1
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Contig name in SAM file
contig contigs sam contig name written 7 months ago by maryam.95 • 10 • updated 7 months ago by WouterDeCoster ♦ 40k
7
votes
1
answer
1.3k
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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 2.1 years ago by cristian • 220 • updated 13 months ago by Biostar ♦♦ 20
0
votes
0
answers
315
views
0
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Removing unmatched Ns from query sequence based on alignment
genome alignment contig sequence written 14 months ago by Michael Gruenstaeudl • 40
3
votes
1
answer
1.0k
views
1
answer
The --contig option for SPAdes
assembly contig spades written 15 months ago by 934963534 • 20 • updated 15 months ago by dark.lord • 0
6
votes
1
answer
530
views
1
answer
What is URL of Contig in VCF format?
contig written 15 months ago by 2012secondseason • 10 • updated 15 months ago by RamRS ♦ 22k
0
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0
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597
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0
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Local BLAST+ search very slow
contig blast written 16 months ago by dylan.lawrence • 10
2
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2
answers
1.2k
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2
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How to map NCBI contig positions to chromosome positions
ncbi contig ribosomal grch37.13 written 2.5 years ago by Jackie • 70 • updated 17 months ago by tdmurphy • 160
0
votes
1
answer
584
views
1
answer
How to extract variable nucleotide regions from a list of contigs
extract contig refseq blast written 19 months ago by kayrouz.1 • 0 • updated 19 months ago by lakhujanivijay ♦ 4.2k
0
votes
0
answers
708
views
0
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Difference between unlocalized and unplaced fragments
contig chromosomer scaffold scaffolding written 23 months ago by cristian • 220
12
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5
answers
3.0k
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5 follow
5
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How to extract contigs from FASTA file which contains specific sequence
fasta find extraction contig written 4.5 years ago by Paul • 1.3k • updated 23 months ago by Brian Bushnell ♦ 16k
7
votes
2
answers
1.8k
views
2
answers
Scaffolding with pacbio reads
assembly contig scaffold pacbio written 2.0 years ago by guillaume.rbt • 620 • updated 2.0 years ago by shwethacm • 200
2
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0
answers
644
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0
answers
dedupe.sh from bbmap excludes contigs with insufficient overlap
assembly contig bbmap dedupe written 2.0 years ago by cristian • 220
0
votes
1
answer
965
views
1
answer
Number of reference sequence contigs in sam/bam header does not match the number in my fasta
fasta bowtie2 contig sam bam written 2.3 years ago by marcusanaymik • 10 • updated 2.3 years ago by Brian Bushnell ♦ 16k
1
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0
answers
1.6k
views
0
answers
Contigs Taxonomy from assembled metagenomes
metagenomics taxonomy metagenome contig written 2.5 years ago by David • 150
0
votes
0
answers
949
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0
answers
Contig's coverage and bam files.
contig coverage bam written 2.7 years ago by Picasa • 450 • updated 2.5 years ago by Biostar ♦♦ 20
1
vote
0
answers
1.4k
views
0
answers
What is the format of *.contigs.fasta files?
fasta next-gen contig written 2.8 years ago by Na Sed • 280 • updated 2.8 years ago by genomax ♦ 70k
1
vote
1
answer
2.1k
views
1
answer
Contig length distribution plotting with R
plotting R contig length written 3.6 years ago by seta • 1.2k • updated 3.6 years ago by h.mon ♦ 26k
0
votes
0
answers
1.1k
views
0
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Transcriptome assembly improvement with Soap-denovo trans
assembly contig rna-seq soap-denovo trans written 3.6 years ago by seta • 1.2k
3
votes
2
answers
3.2k
views
2
answers
Spades Assembler output
assembly contig spades written 3.7 years ago by midox • 220 • updated 3.7 years ago by MathGon • 10
0
votes
1
answer
1.1k
views
1
answer
contigs alignment with long reads
ngs alignment contig written 3.7 years ago by midox • 220
0
votes
0
answers
901
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0
answers
traversal stats explanations
assembly contig quast traversal minia written 3.8 years ago by pbigbig • 190
0
votes
0
answers
935
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0
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What is "M" letter in the singlets output file generated by CAP3
singlets assembly contig cap3 written 3.8 years ago by seta • 1.2k
1
vote
1
answer
2.0k
views
1
answer
contig with overlaps. how to circularize?
genome assembly contig circular dna written 3.9 years ago by jolespin • 120 • updated 3.9 years ago by Philipp Bayer ♦ 6.3k
1
vote
1
answer
1.3k
views
1
answer
Nice open source alternative to "contig viewer" in SeqMan Pro
seqman contig paired end written 3.9 years ago by mschmid • 90 • updated 3.9 years ago by Lesley Sitter • 460
3
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2
answers
1.1k
views
2
answers
Tool to detect closed contigs in FASTA/FASTQ file
contig close assambly written 3.9 years ago by mschmid • 90
2
votes
1
answer
1.6k
views
1
answer
Split BAM into 1 BAM per contig
contig sam written 4.1 years ago by Marvin • 150 • updated 4.1 years ago by Pierre Lindenbaum ♦ 121k
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