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Correcting variant allele fraction using tumor purity (experimentally measured)
variant calling sequencing cancer SNP next-gen
3.4 years ago by Luca Beltrame ▴ 240
4
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3
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5.3k
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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 3.5 years ago by 6.1k • written 6.9 years ago by ▴ 240
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622
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Generate coordinates of specific length between two BED features
bed bedtools
4.0 years ago by Luca Beltrame ▴ 240
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2
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981
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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 4.3 years ago by 82k • written 4.3 years ago by ▴ 240
2
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4
replies
5.1k
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Loess Normalization And Scale Issues
microarray r data
updated 5.7 years ago by 44k • written 12.9 years ago by ▴ 240
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0
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3.2k
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Proper way to plot VCF files from structural variant callers
sequencing visualization circos
8.1 years ago by Luca Beltrame ▴ 240
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4
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2.8k
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Calculation Of Theoretical Minimum Coverage Per Mutation Frequency
mutation sequencing coverage
updated 15 months ago by 44k • written 11.4 years ago by ▴ 240
4
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7
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5.5k
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Targeted NGS: amplicon length vs read length
sequencing next-gen amplicon
updated 8.2 years ago by 47k • written 8.2 years ago by ▴ 240
8
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3
replies
5.2k
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Re-Annotating An Existing Gff File?
gff annotation
updated 8.7 years ago by 20 • written 11.5 years ago by ▴ 240
4
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2
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3.8k
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How To Interpret Dp Fields For Samples In Vcf Files?
vcf sequencing
updated 8.7 years ago by 20 • written 11.0 years ago by ▴ 240
4
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8
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4.1k
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How To Represent Two Different Indels At The Same Position In A Multisample Vcf?
vcf variant-calling sequencing
updated 10.0 years ago by 20 • written 10.6 years ago by ▴ 240
2
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4
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6.2k
views
Build Phylogenetic Trees From Bam Files
sequencing bam
updated 10.3 years ago by ▴ 500 • written 10.4 years ago by ▴ 240
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5
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3.5k
views
Quality Control Software For Targeted Sequencing?
ngs analysis sequencing software
updated 10.4 years ago by 24k • written 10.4 years ago by ▴ 240
5
votes
5
replies
5.9k
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Convert Cds-Based Coordinate To Genomic Coordinates
genome mapping
updated 10.5 years ago by 23k • written 10.5 years ago by ▴ 240
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6
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3.7k
views
6 follow
Visualization Tools For Ngs Analysis Results, Suitable For Biologists
software ngs visualization variant-calling
updated 10.6 years ago by ★ 2.2k • written 10.6 years ago by ▴ 240
5
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5
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8.1k
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Finding The Number Of Reads Which Support A Variant In Vcf
vcf sequencing variant-calling depth-of-coverage
updated 10.9 years ago by 22k • written 10.9 years ago by ▴ 240
4
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8
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5.5k
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Targeted Sequencing - Calculating The Minimum Exon Coverage
sequencing coverage exon
updated 11.5 years ago by 27k • written 11.5 years ago by ▴ 240
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1
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3.6k
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Sequencing Depth And Mutation Frequency
sequencing cancer ion-torrent depth-of-coverage
updated 11.9 years ago by 13k • written 12.0 years ago by ▴ 240
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1
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3.1k
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How To Handle Reads Ending With Deletions In Gatk?
gatk indel analysis alignment ion-torrent
12.0 years ago by Luca Beltrame ▴ 240
8
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6
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12k
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Color Clustering Results Basing On Sample Classes In R
r microarray clustering
updated 12.4 years ago by 5.2k • written 12.4 years ago by ▴ 240
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