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How to report coverage at overlapping regions of paired-end reads?
illumina paired-end written 12 days ago by francois • 10 • updated 6 days ago by h.mon ♦ 29k
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91
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Script for Assemble tandemly repeated on paired-end reads
assembly repeat tandem paired-end written 9 weeks ago by milan.calegari • 0
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2
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16k
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10 follow
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Understanding Samtools Flagstat Output
illumina paired-end picard samtools markduplicates written 6.2 years ago by geek_y ♦ 10k • updated 10 weeks ago by Nitha • 10
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187
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How Should I Trim My FASTQ File Now That I Merged Paired-End Reads
fastq paired-end written 12 weeks ago by isu2017 • 0
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How to split Illumina Hiseq 2000 paired-end fastq files?
fastq paired-end rna-seq illumina hiseq 2000 written 4.1 years ago by Yuka Takemon • 20 • updated 3 months ago by ATpoint ♦ 28k
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How to filter both reads of paired end reads by AS when only 1 of the 2 reads has an AS below 50
paired-end alignment samtools sam sambamba written 4 months ago by jelle • 0
2
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2
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352
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2
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featureCounts error with 150bp Paired end RNA seq data
ngs featurecounts paired-end rna-seq star written 5 months ago by ankuresearch • 10 • updated 4 months ago by swbarnes2 ♦ 7.2k
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289
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Merging the output of salmon for RNA-seq counting with paired-end and single-end reads simultaneously
paired-end salmon rna-seq single-end written 5 months ago by nanoide • 40
2
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1
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177
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1
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Paired-end reads that span a position in an assembly
bedtools genome paired-end assembly written 5 months ago by saladi1 • 30 • updated 5 months ago by Pierre Lindenbaum ♦ 125k
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246
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Issue with Bowtie2 mapping
trimmomatic bowtie2 paired-end mapping written 5 months ago by reza • 220
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1
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255
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1
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High G and low A,C,T content in the 1-10bp of Read2 file in a paired-end whole genome bisulfite sequencing, why?
bisulfite sequencing paired-end wgbs sequencing written 5 months ago by Floyd • 0 • updated 5 months ago by Devon Ryan ♦ 93k
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1
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248
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1
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ENA fastq file shown as single-end but has 3 fastq files: X.fastq.gz X_1.fastq.gz X_2.fastq.gz
fastq paired-end single-end ena written 5 months ago by Mr Locuace • 100 • updated 5 months ago by Sean Davis ♦ 25k
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bedtools coverage and paired-end data
bedtools paired-end rna-seq written 5 months ago by eric.londin • 20
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1
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220
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1
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Any pitfalls to consider when using MACS on paired-end data when forward and reverse reads are different lengths?
macs paired-end written 9 months ago by rleach • 120
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3
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942
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6 follow
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Running STAR aligner with paired-end and single-end reads simultaneously
paired-end star single-end rna-seq written 10 months ago by nanoide • 40
1
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1
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447
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1
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Paired-end reads merge tool: Multiple @ lines in merged output of FLASH tool
read merge paired-end fastq flash written 9 months ago by Ankit • 120 • updated 9 months ago by gb • 1.3k
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282
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Calculating read count with paired end sequencing
genome paired-end alignment sequencing written 10 months ago by sb2108 • 0
1
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1
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398
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1
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MiRdeep2 for paired-end RNA-seq?
paired-end novel rna-seq mirdeep2 mirna written 10 months ago by gulamaltab • 0
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1
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1
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ChIPseq paired-end bowtie2 concern regarding biological replicates
bowtie2 paired-end chip-seq written 5.5 years ago by NHEJ • 320 • updated 10 months ago by Biostar ♦♦ 20
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214
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Map illumina reads to multi-fasta in "no mismatches" mode with statistics
sequencing dnaseq paired-end alignment assembly written 10 months ago by grassostefan • 10
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3
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6.4k
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3
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Normalising ChIP-seq data to RPM using a 1 or 2 count for paired-end data?
paired-end chip-seq normalisation written 5.0 years ago by James Ashmore • 2.8k • updated 11 months ago by Biostar ♦♦ 20
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5
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4.9k
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7 follow
5
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Collect Read Pairs Where At Least One Read Is Mapped
paired-end samtools sam written 6.6 years ago by fridhackery • 140 • updated 11 months ago by ying.kev • 0
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2
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5.2k
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2
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TrimGalore! on multiple paired fastq files
paired-end script rna-seq trimgalore! written 3.3 years ago by emblake • 50 • updated 11 months ago by rogangrant2022 • 10
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477
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Getting unmapped paired-end reads as fastq from unmapped.bam obtained with tophat2
alignment paired-end tophat2 rna-seq written 12 months ago by cris.kgs • 0
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2
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2
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Does The Mapping Of A Read'S Pair Affect Its Own Mapping Score In Bwa?
paired-end mapping bwa written 6.0 years ago by jhrf • 10 • updated 12 months ago by Biostar ♦♦ 20
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java.lang.OutOfMemoryError: Java heap space not solve with -Xmx
outofmemoryerror xmx paired-end bbmap repair.sh written 12 months ago by mb2subi • 0
0
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1
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436
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1
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Problem mapping paired-end Illumina reads
paired-end alignment chip-seq written 12 months ago by biostart • 340 • updated 12 months ago by swbarnes2 ♦ 7.2k
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410
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How to generate bigwig file from paired end reads that overlap
paired-end clip bigwig rna-seq small rnas written 14 months ago by racrna • 0
1
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1
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455
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1
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BBMAP paired end alignment problem
paired-end bbmap align written 14 months ago by mark.rose • 30 • updated 14 months ago by h.mon ♦ 29k
1
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2
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2
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How do I configure the read name output from STAR?
paired-end picard chip-seq star written 4.8 years ago by jgbradley1 • 100 • updated 15 months ago by RamRS ♦ 25k
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