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Direct cDNA nanopore strandness discover - 2D approach
direct cdna long reads nanopore strand written 13 days ago by ruisergioluis • 20
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Necessary to filter out nanopore (or PacBio) reads before mapping?
minimap2 alignment mapping nanopore written 19 days ago by BioinformaticsLad • 130 • updated 14 days ago by Biostar ♦♦ 20
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Programs for bacterial gene prediction/annotation for nanopore assembly?
annotation gene prediction nanopore prokka glimmer written 21 days ago by BioinformaticsLad • 130 • updated 21 days ago by predeus • 1.1k
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Oxford Nanopore error rate?
rate nanopore oxford error written 28 days ago by stacy734 • 40 • updated 27 days ago by WouterDeCoster ♦ 39k
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Using DESeq2with Oxford Nanopore Technology Direct RNA Sequencing
deseq2 minion rna-seq nanopore written 5 weeks ago by uhlkatie • 0 • updated 5 weeks ago by ATpoint ♦ 17k
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BLAST fastq file to a custom database
fastq blast database nanopore written 7 weeks ago by hellen6570 • 10 • updated 7 weeks ago by JC ♦ 7.9k
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Tool: TAMA: long read RNA sequencing (Iso-Seq and Nanopore) processing tools
isoseq tool tama pacbio iso-seq nanopore written 8 weeks ago by genomerik • 30
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Software to extend and join contigs for bacterial genome using illumina and nanopore reads
assembly contig join nanopore denovo aligngraph written 10 weeks ago by ambi1999 • 30 • updated 9 weeks ago by Leo Poorvin • 0
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Racon-Illumina or Pilon?
assembly polishing nanopore written 12 months ago by predeus • 1.1k • updated 9 weeks ago by sullis02 • 0
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Nanopore reads of simple repeats
nanopore written 9 weeks ago by BioinformaticsLad • 130
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Methods to determine if a nanopore 1-D read is from the forward or reverse strand without a reference?
nanopore written 9 weeks ago by BioinformaticsLad • 130 • updated 9 weeks ago by WouterDeCoster ♦ 39k
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Oxford Nanopore insertion vs deletion rates
basecalling nanopore written 3 months ago by BioinformaticsLad • 130 • updated 10 weeks ago by WouterDeCoster ♦ 39k
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Low Mapping percentage with Minimap2 due to contamination
minimap2 reference genome mapping nanopore written 12 weeks ago by rah • 20
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sam2rma error while doing metagenomics analysis
megantools sam2rma nanopore megan written 3 months ago by shashi • 0 • updated 3 months ago by WouterDeCoster ♦ 39k
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Demultiplex nanopore reads with custom barcodes
ngs minion nanopore demultiplexing written 3 months ago by materanv96 • 0
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How are probabilities of insertions and deletions encoded in FASTQ?
indels fastq nanopore phred quality score pacbio written 3 months ago by shelkmike • 130 • updated 3 months ago by Devon Ryan ♦ 90k
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Oxford Nanopore for structural variation calling
nanopore structural variation written 4 months ago by borealis • 20 • updated 3 months ago by Biostar ♦♦ 20
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How to identify long reads coming from ligated cDNAs before sequencing ?
minimap2 cdna alignment nanopore ont written 3 months ago by Florian Bernard • 50
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Whole genome amplification+Nanopore of cell line
genome wgs phi29 nanopore amplification written 4 months ago by jacke123 • 0
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"Centrifuge-build" tool - usage
metagenomics core nanopore centriguge written 4 months ago by deepak.deucy • 0
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Need help on Metagenomics 16S analysis of Nanopore NGS data
metagenomics 16s nanopore written 4 months ago by Shashi Kanth • 10
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Best practices for counting genes with nanopore RNAseq data
alignment rna-seq nanopore written 4 months ago by Florian Bernard • 50 • updated 4 months ago by h.mon ♦ 26k
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How to call variants for mitochondrial genome data of nanopore minIon sequencing?
genome mitochondria nanopolish snp nanopore written 5 months ago by pradyumna Jayaram • 170
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Correct alignmnent region from Circlator output mapped to orignal assembly
genome assembly circlator alignment nanopore written 5 months ago by ian.will • 0 • updated 5 months ago by h.mon ♦ 26k
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Pilon polishing highly repetitive nanopore assembly
genome assembly pilon nanopore canu written 6 months ago by treitlis • 30 • updated 6 months ago by WouterDeCoster ♦ 39k
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How to meassure transcript expression from Oxford nanopore sequencing data
transcript expression rna-seq nanopore written 6 months ago by caggtaagtat • 620 • updated 6 months ago by WouterDeCoster ♦ 39k
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Nanopore SNP and indels calling tool
snps indels tools calling nanopore written 11 months ago by tarek.mohamed • 250 • updated 6 months ago by WouterDeCoster ♦ 39k
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running problem Albacore
software error next-gen albacore nanopore written 7 months ago by melinaruggiero • 0 • updated 7 months ago by RamRS ♦ 22k
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Error correction of long reads
nanopore pacbio sequencing written 7 months ago by IP • 550
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How to find a specific sequence within noisy reads ?
python sequence match nanopore rna-seq written 7 months ago by Florian Bernard • 50
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