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ComBat for Multiple Batch Effects in Methylation Data (Chip, Row, Plate)
ComBat methylation EPIC batch-correction
updated 3 months ago by ★ 2.1k • written 3 months ago by ▴ 350
3
votes
2
replies
1.5k
views
Estimating Index Hopping
bcl2fastq bclconvert
updated 24 months ago by 20k • written 24 months ago by ▴ 350
0
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0
replies
1.5k
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Comment: Comment: Nextflow: absolute file path gets concatenated?
2.2 years ago by Eliveri ▴ 350
2
votes
2
replies
1.5k
views
Nextflow: absolute file path gets concatenated?
nextflow
2.2 years ago by Eliveri ▴ 350
4
votes
2
replies
1.8k
views
Run Nextflow Process in For Loop from Chromosomes 1 through N?
nextflow
updated 2.3 years ago by 166k • written 2.3 years ago by ▴ 350
3
votes
2
replies
1.9k
views
Nextflow: how to pass Bam and Bam index as Input Channel?
nextflow bam
updated 2.3 years ago by 166k • written 2.3 years ago by ▴ 350
0
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0
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1.0k
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Comment: Comment: Identify similarly mapped reads in BAM/SAM?
2.3 years ago by Eliveri ▴ 350
2
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2
replies
1.0k
views
Identify similarly mapped reads in BAM/SAM?
bam igv sam python r
2.3 years ago by Eliveri ▴ 350
0
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0
replies
3.2k
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Comment: Comment: Nextflow: No space left on device, process using output directory as input?
2.6 years ago by Eliveri ▴ 350
0
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1
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3.2k
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Comment: Comment: Nextflow: No space left on device, process using output directory as input?
2.6 years ago by Eliveri ▴ 350
7
votes
6
replies
3.2k
views
Nextflow: No space left on device, process using output directory as input?
nextflow
updated 2.6 years ago by ▴ 410 • written 2.6 years ago by ▴ 350
1
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0
replies
2.2k
views
Comment: Comment: How do you download from CyVerse using FTP or wget?
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
2.4k
views
Comment: Comment: Nextflow Gatk DepthOfCoverage: Failure working with the tmp directory
2.6 years ago by Eliveri ▴ 350
1
vote
2
replies
2.2k
views
Comment: Comment: How do you download from CyVerse using FTP or wget?
2.6 years ago by Eliveri ▴ 350
5
votes
1
reply
2.2k
views
Answer: Answer: How do you download from CyVerse using FTP or wget?
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
1.4k
views
Comment: Comment: Rscript Nextflow Error: unable to load shared object
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.1k
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Comment: Comment: Samtools equivalent of "CleanSam" Picard GATK?
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.1k
views
Comment: Comment: Samtools equivalent of "CleanSam" Picard GATK?
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
1.6k
views
Comment: Comment: SamSort gatk invalid argument / no space left on disk
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.5k
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Comment: Comment: Running Rscript in Nextflow (Rmd file not found)
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
3.1k
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Comment: Comment: How to select or subset process outputs in Nextflow DSL2?
2.6 years ago by Eliveri ▴ 350
1
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0
replies
2.2k
views
Comment: Comment: Nextflow output from different processes mixed up as input in later processes
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.2k
views
Comment: Comment: Allocating memory for samtools sort in nextflow?
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.2k
views
Comment: Comment: Allocating memory for samtools sort in nextflow?
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
2.9k
views
Comment: Comment: Filter out Bam not overlapping with Bed File (keeping a read and its mate)?
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
2.9k
views
Comment: Comment: Filter out Bam not overlapping with Bed File (keeping a read and its mate)?
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
2.0k
views
Comment: Comment: Converting Bam file to Fasta (Zipped)
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
2.0k
views
Comment: Comment: Converting Bam file to Fasta (Zipped)
2.6 years ago by Eliveri ▴ 350
0
votes
1
reply
2.4k
views
Comment: Comment: Nextflow Gatk DepthOfCoverage: Failure working with the tmp directory
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
2.7k
views
Comment: Comment: Nextflow Rmd render script cannot find input files?
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
3.2k
views
Comment: Comment: Fetching UniProt ID Mapping results as TSV using Python?
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
2.4k
views
Comment: Comment: Nextflow workflow errors when run from Scratch dir?
2.6 years ago by Eliveri ▴ 350
1
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0
replies
2.4k
views
Comment: Comment: Nextflow workflow errors when run from Scratch dir?
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
2.7k
views
Comment: Comment: Nextflow Rmd render script cannot find input files?
2.6 years ago by Eliveri ▴ 350
0
votes
0
replies
2.5k
views
Comment: Comment: Nextflow: [E::bwa_idx_load_from_disk] fail to locate the index files
2.6 years ago by Eliveri ▴ 350
5
votes
6
replies
2.7k
views
Nextflow Rmd render script cannot find input files?
render r rmd nextflow
2.6 years ago by Eliveri ▴ 350
7
votes
7
replies
2.4k
views
Nextflow Gatk DepthOfCoverage: Failure working with the tmp directory
tmp gatk nextflow
2.6 years ago by Eliveri ▴ 350
1
vote
1
reply
2.4k
views
Answer: Answer: Nextflow Gatk DepthOfCoverage: Failure working with the tmp directory
2.6 years ago by Eliveri ▴ 350
7
votes
4
replies
2.4k
views
Nextflow workflow errors when run from Scratch dir?
bwa nextflow
2.6 years ago by Eliveri ▴ 350
7
votes
5
replies
2.5k
views
Nextflow: [E::bwa_idx_load_from_disk] fail to locate the index files
sge bwa nextflow
2.6 years ago by Eliveri ▴ 350
0
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0
replies
2.5k
views
Comment: Comment: Nextflow SGE: [E::bwa_idx_load_from_disk] fail to locate the index files
2.6 years ago by Eliveri ▴ 350
0
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0
replies
4.9k
views
Comment: Comment: Nextflow Singularity/Apptainer error: command not found
2.6 years ago by Eliveri ▴ 350
1
vote
0
replies
4.9k
views
Comment: Comment: Nextflow Singularity/Apptainer error: command not found
2.6 years ago by Eliveri ▴ 350
1
vote
1
reply
4.9k
views
Comment: Comment: Nextflow Singularity/Apptainer error: command not found
2.6 years ago by Eliveri ▴ 350
0
votes
1
reply
4.9k
views
Comment: Comment: Nextflow Singularity/Apptainer error: command not found
2.6 years ago by Eliveri ▴ 350
9
votes
11
replies
4.9k
views
Nextflow Singularity/Apptainer error: command not found
apptainer singularity nextflow
2.6 years ago by Eliveri ▴ 350
0
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1
reply
4.9k
views
Comment: Comment: Nextflow Singularity/Apptainer error: command not found
2.6 years ago by Eliveri ▴ 350
2
votes
3
replies
3.2k
views
Fetching UniProt ID Mapping results as TSV using Python?
uniprot python tsv json
2.6 years ago by Eliveri ▴ 350
0
votes
1
reply
3.2k
views
Answer: Answer: Fetching UniProt ID Mapping results as TSV using Python?
2.6 years ago by Eliveri ▴ 350
3
votes
3
replies
1.5k
views
Removing (stubborn) new line from Fasta file sequence?
fasta
updated 2.7 years ago by 11k • written 2.7 years ago by ▴ 350
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