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22
votes
10
replies
8.7k
views
9 follow
fastq compression tools of choice
fastq compression
updated 9 weeks ago by • 0 • written 8.7 years ago by ▴ 590
1
vote
2
replies
2.5k
views
annotate VCF file with LRG ?
LRG vcf annotation
updated 2.4 years ago by 43k • written 9.8 years ago by ▴ 590
6
votes
8
replies
2.9k
views
IGV over SSH?
IGV SSH remote
updated 2.8 years ago by 43k • written 3.3 years ago by ▴ 590
0
votes
0
replies
1.1k
views
Answer: A: SnpSift set intersection with EFF annotations
3.3 years ago by Richard ▴ 590
0
votes
1
reply
1.1k
views
SnpSift set intersection with EFF annotations
snpsift variant annotation parsing
3.3 years ago by Richard ▴ 590
0
votes
1
reply
685
views
classify contaminants in bisulfite treated whole genome data
wgbs
updated 3.5 years ago by 8.9k • written 3.5 years ago by ▴ 590
0
votes
0
replies
984
views
Comment: C: Calling CNVs using a single tumor sample
3.6 years ago by Richard ▴ 590
0
votes
0
replies
813
views
Answer: A: Manually Search Sam/Bam File
3.6 years ago by Richard ▴ 590
0
votes
3
replies
923
views
creating container - should it contain a workflow manager?
singularity snakemake nextflow
updated 3.9 years ago by 22k • written 3.9 years ago by ▴ 590
3
votes
0
replies
38k
views
Answer: A: Efficient And Fastest Way To Sort Large (>100Gb) Bam Files?
updated 4.3 years ago by 43k • written 9.9 years ago by ▴ 590
1
vote
0
replies
2.3k
views
Answer: C: Affy 500K positions in hg38
updated 4.4 years ago by 43k • written 8.4 years ago by ▴ 590
0
votes
2
replies
1.3k
views
matched designed sequence in nanopore reads
sequence alignment
updated 4.4 years ago by ▴ 120 • written 4.4 years ago by ▴ 590
1
vote
0
replies
2.3k
views
Answer: A: multiqc change sample names
4.8 years ago by Richard ▴ 590
1
vote
2
replies
2.3k
views
multiqc change sample names
multiqc
4.8 years ago by Richard ▴ 590
0
votes
0
replies
2.3k
views
Comment: C: multiqc change sample names
4.8 years ago by Richard ▴ 590
1
vote
4
replies
1.6k
views
UMI with MACS
UMI MACS ChIP-Seq
updated 5.0 years ago by 19k • written 5.0 years ago by ▴ 590
0
votes
0
replies
1.6k
views
Comment: C: UMI with MACS
5.0 years ago by Richard ▴ 590
0
votes
1
reply
1.6k
views
Comment: C: UMI with MACS
5.0 years ago by Richard ▴ 590
0
votes
1
reply
3.5k
views
Comment: C: beginner snakemake scatter gather help
5.2 years ago by Richard ▴ 590
0
votes
1
reply
3.5k
views
Comment: C: beginner snakemake scatter gather help
5.2 years ago by Richard ▴ 590
0
votes
1
reply
3.5k
views
Comment: A: beginner snakemake scatter gather help
5.2 years ago by Richard ▴ 590
4
votes
8
replies
3.5k
views
beginner snakemake scatter gather help
snakemake
5.2 years ago by Richard ▴ 590
2
votes
1
reply
3.5k
views
does bwa mem use base qualities?
bwa
updated 21 months ago by 43k • written 8.3 years ago by ▴ 590
0
votes
0
replies
950
views
MD tags - important for analysis tools?
BAM MD
5.3 years ago by Richard ▴ 590
2
votes
3
replies
2.6k
views
miRNA with UMI - any papers showing this improves accuracy?
miRNA UMI
updated 5.3 years ago by ▴ 40 • written 5.9 years ago by ▴ 590
0
votes
0
replies
2.2k
views
Comment: C: how to fix old VCF headers
updated 5.6 years ago by 16k • written 5.6 years ago by ▴ 590
0
votes
1
reply
2.2k
views
how to fix old VCF headers
VCF
5.6 years ago by Richard ▴ 590
2
votes
1
reply
900
views
Human Promethion data available?
sequence
updated 5.6 years ago by 47k • written 5.6 years ago by ▴ 590
0
votes
1
reply
944
views
Germline genome ground truth sets
ground truth
updated 5.6 years ago by 20 • written 5.8 years ago by ▴ 590
0
votes
0
replies
1.3k
views
merge aligned read pairs that overlap - keep the bases that match the reference
paired-end illumina
5.9 years ago by Richard ▴ 590
15
votes
9
replies
7.5k
views
6 follow
compare SV results across samples - Manta, Delly
manta delly wgs illumina
updated 2.6 years ago by • 0 • written 6.0 years ago by ▴ 590
0
votes
1
reply
2.3k
views
Comment: C: merge Bed entries with both ends within maximum distance
6.1 years ago by Richard ▴ 590
0
votes
1
reply
2.3k
views
Comment: C: merge Bed entries with both ends within maximum distance
6.1 years ago by Richard ▴ 590
1
vote
1
reply
2.3k
views
Comment: C: merge Bed entries with both ends within maximum distance
6.1 years ago by Richard ▴ 590
2
votes
12
replies
2.3k
views
merge Bed entries with both ends within maximum distance
next-gen alignment
updated 6.1 years ago by 35k • written 6.1 years ago by ▴ 590
0
votes
0
replies
2.3k
views
Comment: C: merge Bed entries with both ends within maximum distance
6.1 years ago by Richard ▴ 590
0
votes
2
replies
3.9k
views
extract reads from BAM whose fragments overlap a specified region
alignment
updated 6.1 years ago by 161k • written 6.1 years ago by ▴ 590
2
votes
1
reply
939
views
estimate error profile from aligned Illumina reads
illumina error_rate
updated 6.3 years ago by ★ 3.8k • written 6.3 years ago by ▴ 590
0
votes
4
replies
2.5k
views
auto trimming of adapter and 6 base normalizing sequence from miRNA reads
microRNA trimming adapters
updated 21 months ago by 43k • written 8.4 years ago by ▴ 590
4
votes
4
replies
2.5k
views
simulating illumina data with spiked variants
simulated-data illumina
updated 2.5 years ago by 43k • written 9.8 years ago by ▴ 590
0
votes
0
replies
2.0k
views
Comment: C: proximal duplicate parameters - HiSeq X
7.2 years ago by Richard ▴ 590
0
votes
2
replies
2.0k
views
proximal duplicate parameters - HiSeq X
duplicates proximal
updated 7.2 years ago by 141k • written 7.2 years ago by ▴ 590
2
votes
3
replies
2.3k
views
Affy 500K positions in hg38
affymetrix hg38
updated 8.4 years ago by 26k • written 8.4 years ago by ▴ 590
0
votes
1
reply
4.4k
views
Comment: C: variant calling on amplicon data
8.6 years ago by Richard ▴ 590
6
votes
7
replies
4.4k
views
variant calling on amplicon data
amplicon variant
updated 19 months ago by 43k • written 8.6 years ago by ▴ 590
5
votes
2
replies
5.6k
views
Answer: Answer: Identify somatic mutations in cancer exome without a matched pair.
updated 2.0 years ago by 43k • written 8.7 years ago by ▴ 590
1
vote
1
reply
2.3k
views
tools using CRAM format?
cram
updated 19 months ago by 43k • written 8.7 years ago by ▴ 590
0
votes
1
reply
2.4k
views
Comment: C: merging bed coordinates - get depth and information about merged regions
8.7 years ago by Richard ▴ 590
0
votes
1
reply
2.4k
views
Comment: Comment: merging bed coordinates - get depth and information about merged regions
updated 18 months ago by 43k • written 8.7 years ago by ▴ 590
2
votes
4
replies
2.4k
views
merging bed coordinates - get depth and information about merged regions
bed bedtools
updated 18 months ago by 43k • written 8.7 years ago by ▴ 590
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