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753
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Correcting variant allele fraction using tumor purity (experimentally measured)
variant calling sequencing cancer SNP next-gen
2.9 years ago by Luca Beltrame ▴ 240
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0
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4.9k
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Comment: C: Aggregate multiple VCFs into a single MAF or generate a multi-sample MAF from a
3.0 years ago by Luca Beltrame ▴ 240
4
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3
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4.9k
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Aggregate multiple VCFs into a single MAF or generate a multi-sample MAF from a multi-sample VCF
sequencing file-formats maf conversion
updated 3.0 years ago by 6.0k • written 6.5 years ago by ▴ 240
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0
replies
558
views
Generate coordinates of specific length between two BED features
bed bedtools
3.5 years ago by Luca Beltrame ▴ 240
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0
replies
885
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Comment: C: Merge regions in a BED but only if they share the same value (copy number) in a
3.9 years ago by Luca Beltrame ▴ 240
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2
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885
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Merge regions in a BED but only if they share the same value (copy number) in a column
bedtools copy number bedops
updated 3.9 years ago by 78k • written 3.9 years ago by ▴ 240
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0
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4.8k
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Comment: C: Loess Normalization And Scale Issues
updated 5.2 years ago by 41k • written 12.4 years ago by ▴ 240
2
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4
replies
4.8k
views
Loess Normalization And Scale Issues
microarray r data
updated 5.2 years ago by 41k • written 12.4 years ago by ▴ 240
1
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0
replies
3.1k
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Proper way to plot VCF files from structural variant callers
sequencing visualization circos
7.6 years ago by Luca Beltrame ▴ 240
2
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4
replies
2.6k
views
Calculation Of Theoretical Minimum Coverage Per Mutation Frequency
mutation sequencing coverage
updated 9 months ago by 41k • written 10.9 years ago by ▴ 240
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2
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5.3k
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Comment: C: Targeted NGS: amplicon length vs read length
7.7 years ago by Luca Beltrame ▴ 240
4
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7
replies
5.3k
views
Targeted NGS: amplicon length vs read length
sequencing next-gen amplicon
updated 7.7 years ago by 47k • written 7.7 years ago by ▴ 240
8
votes
3
replies
5.0k
views
Re-Annotating An Existing Gff File?
gff annotation
updated 8.2 years ago by 20 • written 11.1 years ago by ▴ 240
4
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2
replies
3.6k
views
How To Interpret Dp Fields For Samples In Vcf Files?
vcf sequencing
updated 8.2 years ago by 20 • written 10.5 years ago by ▴ 240
4
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8
replies
3.9k
views
How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
vcf variant-calling sequencing
updated 9.5 years ago by 20 • written 10.2 years ago by ▴ 240
2
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4
replies
6.0k
views
Build Phylogenetic Trees From Bam Files
sequencing bam
updated 9.8 years ago by ▴ 500 • written 10.0 years ago by ▴ 240
0
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2
replies
3.3k
views
Comment: C: Quality Control Software For Targeted Sequencing?
9.9 years ago by Luca Beltrame ▴ 240
5
votes
5
replies
3.3k
views
Quality Control Software For Targeted Sequencing?
ngs analysis sequencing software
updated 9.9 years ago by 24k • written 9.9 years ago by ▴ 240
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1
reply
6.0k
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Comment: C: Build Phylogenetic Trees From Bam Files
10.0 years ago by Luca Beltrame ▴ 240
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0
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5.1k
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Comment: C: Snp Calling Of Tcga Data Using Samtools
10.0 years ago by Luca Beltrame ▴ 240
5
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5
replies
5.7k
views
Convert Cds-Based Coordinate To Genomic Coordinates
genome mapping
updated 10.1 years ago by 23k • written 10.1 years ago by ▴ 240
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0
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5.7k
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Comment: C: Convert Cds-Based Coordinate To Genomic Coordinates
10.1 years ago by Luca Beltrame ▴ 240
0
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0
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5.7k
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Comment: C: Convert Cds-Based Coordinate To Genomic Coordinates
10.1 years ago by Luca Beltrame ▴ 240
0
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0
replies
3.9k
views
Comment: C: How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
10.1 years ago by Luca Beltrame ▴ 240
0
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0
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3.9k
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Comment: C: How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
10.2 years ago by Luca Beltrame ▴ 240
1
vote
1
reply
3.9k
views
Comment: C: How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
10.2 years ago by Luca Beltrame ▴ 240
0
votes
1
reply
3.9k
views
Comment: C: How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
10.2 years ago by Luca Beltrame ▴ 240
5
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6
replies
3.6k
views
6 follow
Visualization Tools For Ngs Analysis Results, Suitable For Biologists
software ngs visualization variant-calling
updated 10.2 years ago by ★ 2.2k • written 10.2 years ago by ▴ 240
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0
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7.8k
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Comment: C: Finding The Number Of Reads Which Support A Variant In Vcf
10.4 years ago by Luca Beltrame ▴ 240
5
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5
replies
7.8k
views
Finding The Number Of Reads Which Support A Variant In Vcf
vcf sequencing variant-calling depth-of-coverage
updated 10.4 years ago by 22k • written 10.5 years ago by ▴ 240
0
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0
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2.8k
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Answer: A: Bioconductor Rankprod Strange Results.
10.5 years ago by Luca Beltrame ▴ 240
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0
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5.3k
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Comment: C: Targeted Sequencing - Calculating The Minimum Exon Coverage
11.0 years ago by Luca Beltrame ▴ 240
0
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1
reply
5.3k
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Comment: C: Targeted Sequencing - Calculating The Minimum Exon Coverage
11.0 years ago by Luca Beltrame ▴ 240
0
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0
replies
5.3k
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Comment: C: Targeted Sequencing - Calculating The Minimum Exon Coverage
11.1 years ago by Luca Beltrame ▴ 240
4
votes
8
replies
5.3k
views
Targeted Sequencing - Calculating The Minimum Exon Coverage
sequencing coverage exon
updated 11.1 years ago by 26k • written 11.1 years ago by ▴ 240
0
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1
reply
3.5k
views
Sequencing Depth And Mutation Frequency
sequencing cancer ion-torrent depth-of-coverage
updated 11.4 years ago by 13k • written 11.5 years ago by ▴ 240
0
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1
reply
2.9k
views
How To Handle Reads Ending With Deletions In Gatk?
gatk indel analysis alignment ion-torrent
11.6 years ago by Luca Beltrame ▴ 240
8
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6
replies
12k
views
Color Clustering Results Basing On Sample Classes In R
r microarray clustering
updated 11.9 years ago by 5.2k • written 11.9 years ago by ▴ 240
0
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0
replies
12k
views
Comment: C: Color Clustering Results Basing On Sample Classes In R
11.9 years ago by Luca Beltrame ▴ 240
0
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0
replies
12k
views
Comment: C: Color Clustering Results Basing On Sample Classes In R
11.9 years ago by Luca Beltrame ▴ 240
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