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MarkDuplicates of a queryname sorted bam more expensive than a coordinate sorted bam
next-gen alignment
updated 4.0 years ago by 20k • written 4.6 years ago by ▴ 560
0
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1
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12k
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Comment: C: How to filter a VCF file with a list of CHR or contig IDs?
4.4 years ago by drkennetz ▴ 560
2
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1
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12k
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Answer: A: How to filter a VCF file with a list of CHR or contig IDs?
4.4 years ago by drkennetz ▴ 560
0
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0
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1.1k
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Comment: C: CWL - glob an array of output files based on a single input string
4.7 years ago by drkennetz ▴ 560
0
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1
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1.1k
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Comment: C: CWL - glob an array of output files based on a single input string
4.7 years ago by drkennetz ▴ 560
0
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4
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1.1k
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CWL - glob an array of output files based on a single input string
cwl
4.7 years ago by drkennetz ▴ 560
0
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0
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825
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Comment: C: Divine tool configuration file requirments
4.8 years ago by drkennetz ▴ 560
2
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0
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2.1k
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Comment: C: What were the most impactful Bioinformatics papers published this year
4.9 years ago by drkennetz ▴ 560
0
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0
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8.8k
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Answer: A: Python FASTA scripting
5.2 years ago by drkennetz ▴ 560
3
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2
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5.1k
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Answer: A: How to automate bcl2fastq such that it is launched every time the run finishes o
5.2 years ago by drkennetz ▴ 560
0
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2
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6.9k
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Comment: C: Installing and importing viennaRNA to python in windows
5.3 years ago by drkennetz ▴ 560
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0
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2.7k
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Comment: C: Add an item from input to an output array in CWL
5.3 years ago by drkennetz ▴ 560
9
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7
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2.7k
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Add an item from input to an output array in CWL
cwl
updated 5.3 years ago by ★ 1.9k • written 5.3 years ago by ▴ 560
0
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0
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9.1k
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Comment: C: How to count the total aligned bases in BAM?
5.9 years ago by drkennetz ▴ 560
0
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0
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2.3k
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Comment: C: Depth of Coverage without Read Overlap
6.0 years ago by drkennetz ▴ 560
1
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4
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2.3k
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Depth of Coverage without Read Overlap
next-gen
updated 6.0 years ago by ★ 2.6k • written 6.0 years ago by ▴ 560
0
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0
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2.3k
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Comment: C: Depth of Coverage without Read Overlap
6.0 years ago by drkennetz ▴ 560
0
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0
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12k
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Answer: A: What Is The Fastest Method To Determine The Number Of Positions In A Bam File Wi
6.1 years ago by drkennetz ▴ 560
1
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0
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3.8k
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Comment: C: best practice for renaming file in CWL workflow
6.1 years ago by drkennetz ▴ 560
0
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1
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3.8k
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Comment: C: best practice for renaming file in CWL workflow
6.1 years ago by drkennetz ▴ 560
4
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4
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1.4k
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If a string appears twice in column 1, select the higher value in column 2
awk bash
updated 6.2 years ago by 12k • written 6.4 years ago by ▴ 560
0
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1
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1.6k
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Comment: C: Does Cutadapt change the x,y coordinates in the fastq read name?
6.3 years ago by drkennetz ▴ 560
0
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1
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1.6k
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Comment: C: Does Cutadapt change the x,y coordinates in the fastq read name?
6.3 years ago by drkennetz ▴ 560
3
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5
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1.6k
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Does Cutadapt change the x,y coordinates in the fastq read name?
next-gen alignment
6.3 years ago by drkennetz ▴ 560
0
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0
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1.8k
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Comment: C: Are CWL CommandLineTool arguments guaranteed to be contiguous?
6.3 years ago by drkennetz ▴ 560
0
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1
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1.8k
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Comment: C: Are CWL CommandLineTool arguments guaranteed to be contiguous?
6.3 years ago by drkennetz ▴ 560
2
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0
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1.8k
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Answer: A: Are CWL CommandLineTool arguments guaranteed to be contiguous?
6.3 years ago by drkennetz ▴ 560
0
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0
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3.8k
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Answer: A: How to create a list of the barcodes located in the read headers of demultiplexe
6.3 years ago by drkennetz ▴ 560
0
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0
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2.0k
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Answer: A: bedtools bamtobed of mixed paired-end and non-paired datasets
6.3 years ago by drkennetz ▴ 560
1
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1
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953
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Comment: C: DNA Methylation induced by emotions or other psycological factor
6.3 years ago by drkennetz ▴ 560
0
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1
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1.4k
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Comment: C: If a string appears twice in column 1, select the higher value in column 2
6.4 years ago by drkennetz ▴ 560
0
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1
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3.1k
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Comment: C: Merge .bam files by groups of lanes
6.4 years ago by drkennetz ▴ 560
7
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1
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3.1k
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Answer: A: Merge .bam files by groups of lanes
6.4 years ago by drkennetz ▴ 560
1
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1
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3.1k
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Comment: C: Merge .bam files by groups of lanes
6.4 years ago by drkennetz ▴ 560
0
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1
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11k
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Comment: C: Realign BAM files to other reference file
6.4 years ago by drkennetz ▴ 560
1
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1
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11k
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Answer: A: Realign BAM files to other reference file
6.4 years ago by drkennetz ▴ 560
1
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0
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2.7k
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Answer: A: CWL Workflow renaming outputs
6.4 years ago by drkennetz ▴ 560
0
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1
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2.0k
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Comment: C: scatter over optional argument
6.4 years ago by drkennetz ▴ 560
0
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1
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2.0k
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Comment: C: scatter over optional argument
6.4 years ago by drkennetz ▴ 560
2
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0
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2.8k
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Comment: C: Should bioinformaticians learn the scientific names of plants and animals?
6.4 years ago by drkennetz ▴ 560
0
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0
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3.7k
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Comment: C: Differences between FastQC duplication levels for paired fastq and bam files.
6.4 years ago by drkennetz ▴ 560
0
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1
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3.7k
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Answer: A: Differences between FastQC duplication levels for paired fastq and bam files.
6.4 years ago by drkennetz ▴ 560
0
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1
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4.6k
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Comment: C: Using Samtools depth to get number of forward and reverse reads per base from a
6.4 years ago by drkennetz ▴ 560
0
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1
reply
2.2k
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Comment: C: Workflow Error - "list indices must be integers, not str"
6.4 years ago by drkennetz ▴ 560
5
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0
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10k
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Answer: A: tab to fasta file conversion
6.4 years ago by drkennetz ▴ 560
0
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0
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1.8k
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Answer: A: Pacbio Metagenome alignment
6.4 years ago by drkennetz ▴ 560
1
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0
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1.2k
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Comment: C: InitialWorkDirRequirement copies or symlinks files?
6.4 years ago by drkennetz ▴ 560
0
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0
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1.7k
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Comment: C: How does cwltool actually check file formats?
6.4 years ago by drkennetz ▴ 560
4
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0
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30k
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Answer: Answer: FastQC with multiple FASTQ files
updated 14 months ago by 44k • written 6.4 years ago by ▴ 560
1
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0
replies
2.2k
views
Comment: C: How low abundance can PacBio full length RNAseq can detect
6.4 years ago by drkennetz ▴ 560
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