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single contig de novo assembly
de-novo assembly contig rna-seq written 3 days ago by snishtala03 • 30
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163
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Assemble bacterial .fastq files and find differences (SPAdes followed by MUMmer)
spades mummer bacteria contig snp written 10 weeks ago by LRStar • 190 • updated 10 weeks ago by Joe ♦ 14k
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What are contig, singleton read and discordant mate pairs?
singleton reads contig discordant mate pairs written 3.8 years ago by Genetics • 1.5k • updated 6 months ago by Biostar ♦♦ 20
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239
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Get protein domain information from nucleotide sequence of assembled contigs?
domain contig proteins hmmpred interprp written 6 months ago by DanielC • 100 • updated 6 months ago by lieven.sterck ♦ 6.2k
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246
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Quast shows different reads count for the same fastq file?
reads fastq contig quast written 7 months ago by DanielC • 100
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How calculate CG content for each contig in an transcript assembly?
cg content assembly contig rna-seq transcriptome written 10 months ago by luzglongoria • 20 • updated 10 months ago by lakhujanivijay ♦ 4.5k
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Contig name in SAM file
contig contigs sam contig name written 11 months ago by maryam.95 • 10 • updated 11 months ago by WouterDeCoster ♦ 42k
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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 16 months ago by Biostar ♦♦ 20
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385
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Removing unmatched Ns from query sequence based on alignment
genome alignment contig sequence written 18 months ago by Michael Gruenstaeudl • 40
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The --contig option for SPAdes
assembly contig spades written 19 months ago by 934963534 • 20 • updated 19 months ago by dark.lord • 0
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1
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What is URL of Contig in VCF format?
contig written 19 months ago by 2012secondseason • 20 • updated 19 months ago by RamRS ♦ 24k
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Local BLAST+ search very slow
contig blast written 20 months ago by dylan.lawrence • 10
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How to map NCBI contig positions to chromosome positions
ncbi contig ribosomal grch37.13 written 2.8 years ago by Jackie • 70 • updated 21 months ago by tdmurphy • 170
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How to extract variable nucleotide regions from a list of contigs
extract contig refseq blast written 23 months ago by kayrouz.1 • 0 • updated 23 months ago by lakhujanivijay ♦ 4.5k
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Difference between unlocalized and unplaced fragments
contig chromosomer scaffold scaffolding written 2.2 years ago by cristian • 240
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How to extract contigs from FASTA file which contains specific sequence
fasta find extraction contig written 4.9 years ago by Paul • 1.3k • updated 2.2 years ago by Brian Bushnell ♦ 16k
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Scaffolding with pacbio reads
assembly contig scaffold pacbio written 2.3 years ago by guillaume.rbt • 730 • updated 2.3 years ago by shwethacm • 200
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dedupe.sh from bbmap excludes contigs with insufficient overlap
assembly contig bbmap dedupe written 2.3 years ago by cristian • 240
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Number of reference sequence contigs in sam/bam header does not match the number in my fasta
fasta bowtie2 contig sam bam written 2.6 years ago by marcusanaymik • 10 • updated 2.6 years ago by Brian Bushnell ♦ 16k
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Contigs Taxonomy from assembled metagenomes
metagenomics taxonomy metagenome contig written 2.8 years ago by David • 160
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Contig's coverage and bam files.
contig coverage bam written 3.0 years ago by Picasa • 470 • updated 2.8 years ago by Biostar ♦♦ 20
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What is the format of *.contigs.fasta files?
fasta next-gen contig written 3.1 years ago by Na Sed • 280 • updated 3.1 years ago by genomax ♦ 74k
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Contig length distribution plotting with R
plotting R contig length written 3.9 years ago by seta • 1.2k • updated 3.9 years ago by h.mon ♦ 28k
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Transcriptome assembly improvement with Soap-denovo trans
assembly contig rna-seq soap-denovo trans written 3.9 years ago by seta • 1.2k
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Spades Assembler output
assembly contig spades written 4.0 years ago by midox • 230 • updated 4.0 years ago by MathGon • 10
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contigs alignment with long reads
ngs alignment contig written 4.0 years ago by midox • 230
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traversal stats explanations
assembly contig quast traversal minia written 4.1 years ago by pbigbig • 200
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What is "M" letter in the singlets output file generated by CAP3
singlets assembly contig cap3 written 4.1 years ago by seta • 1.2k
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contig with overlaps. how to circularize?
genome assembly contig circular dna written 4.2 years ago by jolespin • 130 • updated 4.2 years ago by Philipp Bayer ♦ 6.5k
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Nice open source alternative to "contig viewer" in SeqMan Pro
seqman contig paired end written 4.2 years ago by mschmid • 110 • updated 4.2 years ago by Lesley Sitter • 490
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