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Comment: C: Is there a way to annotate existing VCF file with known disease-causing mutation
8.4 years ago by bioinforesearchquestions ▴ 370
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Comment: C: For multisample VCF, should I filter the variants based on allele depth (AD) or
8.4 years ago by bioinforesearchquestions ▴ 370
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Comment: C: Is there a way to annotate existing VCF file with known disease-causing mutation
8.4 years ago by bioinforesearchquestions ▴ 370
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5
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5.3k
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Is there a way to annotate existing VCF file with known disease-causing mutations?
VCF snps DNAseq
8.4 years ago by bioinforesearchquestions ▴ 370
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Comparing samtools,gatk and varscan against gold standard 1000G snps and need to decide the best method
snps vcfs DNAseq
updated 8.4 years ago by 20 • written 8.5 years ago by ▴ 370
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Comment: C: what sql schema to store a vcf file ?
8.4 years ago by bioinforesearchquestions ▴ 370
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7.5k
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Comment: C: what sql schema to store a vcf file ?
8.4 years ago by bioinforesearchquestions ▴ 370
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2.5k
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How do I change the settings in qualimap (bamqc) to consider only the exome length in every chromosome instead of entire chromosome length
sequencing bamqc bam coverage
8.5 years ago by bioinforesearchquestions ▴ 370
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7.5k
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Comment: C: what sql schema to store a vcf file ?
8.5 years ago by bioinforesearchquestions ▴ 370
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2
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2.5k
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For multisample VCF, should I filter the variants based on allele depth (AD) or Overall depth ?
VCFs SNPs Variants Depth DNASeq
updated 8.5 years ago by ▴ 190 • written 8.5 years ago by ▴ 370
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Comment: C: Need some clarifications in snpEFF annotation in extracting exonic variants
8.5 years ago by bioinforesearchquestions ▴ 370
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2
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4.6k
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Need some clarifications in snpEFF annotation in extracting exonic variants
SNPs vcfs SNPEFF DNAseq
updated 8.5 years ago by ★ 1.4k • written 8.5 years ago by ▴ 370
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17k
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Comment: C: Where to find PCR duplicate reads in bam file?
8.5 years ago by bioinforesearchquestions ▴ 370
9
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2
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17k
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Where to find PCR duplicate reads in bam file?
bam dnaseq bwa bowtie2
updated 8.5 years ago by 164k • written 8.5 years ago by ▴ 370
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0
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2.9k
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Trying to filter vcf file using SNPSIFT tool. It throws an error message
SNP VCFs SNPSIFT
8.5 years ago by bioinforesearchquestions ▴ 370
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1
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4.2k
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Comment: C: Want to trim off last 50 bases from 151 bases read using trimmomatic?
8.6 years ago by bioinforesearchquestions ▴ 370
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4.2k
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Comment: C: Want to trim off last 50 bases from 151 bases read using trimmomatic?
8.6 years ago by bioinforesearchquestions ▴ 370
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5
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4.2k
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Want to trim off last 50 bases from 151 bases read using trimmomatic?
FASTQ trimmomatic DNASeq RNASEq
updated 8.6 years ago by 13k • written 8.6 years ago by ▴ 370
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2.3k
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Comment: C: Individual vcf for each sample and single vcf for all samples. Does the output c
8.6 years ago by bioinforesearchquestions ▴ 370
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4
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2.3k
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Individual vcf for each sample and single vcf for all samples. Does the output contents differ?
VCF SNP variant calling DNASeq RNASeq
8.6 years ago by bioinforesearchquestions ▴ 370
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2.3k
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Comment: C: Individual vcf for each sample and single vcf for all samples. Does the output c
8.6 years ago by bioinforesearchquestions ▴ 370
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5.8k
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Comment: C: How to visualize large VCF files
8.6 years ago by bioinforesearchquestions ▴ 370
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1
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5.8k
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Comment: C: How to visualize large VCF files
8.6 years ago by bioinforesearchquestions ▴ 370
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3
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3.7k
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Read counts based on genes from samtools, feature count and htseq-count
DNAseq featurecount samtools htseqcount
updated 8.6 years ago by 105k • written 8.6 years ago by ▴ 370
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3.7k
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Comment: C: Read counts based on genes from samtools, feature count and htseq-count
8.6 years ago by bioinforesearchquestions ▴ 370
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0
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4.9k
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Comment: C: Do I need to use hg19 or hg38 reference for performing variant calling analysis
8.8 years ago by bioinforesearchquestions ▴ 370
7
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10
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4.9k
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Do I need to use hg19 or hg38 reference for performing variant calling analysis and RNAseq analysis?
SNP DNASeq RNASEq reference
updated 8.8 years ago by ▴ 90 • written 8.8 years ago by ▴ 370
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Comment: C: Do I need to use hg19 or hg38 reference for performing variant calling analysis
8.8 years ago by bioinforesearchquestions ▴ 370
0
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0
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4.9k
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Comment: C: Do I need to use hg19 or hg38 reference for performing variant calling analysis
8.8 years ago by bioinforesearchquestions ▴ 370
0
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1
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4.9k
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Comment: C: Do I need to use hg19 or hg38 reference for performing variant calling analysis
8.8 years ago by bioinforesearchquestions ▴ 370
0
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1
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12k
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Comment: C: How to extract fasta sequence of a gene from BAM files generated using Miseq seq
8.9 years ago by bioinforesearchquestions ▴ 370
5
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17
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12k
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How to extract fasta sequence of a gene from BAM files generated using Miseq sequencing
gene Assembly sequencing BAM alignment
updated 2.4 years ago by 44k • written 8.9 years ago by ▴ 370
1
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5
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6.6k
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What is mutation calling in exome sequencing?
Exome Mutation-calling SNP-calling Variant-calling
updated 2.4 years ago by 44k • written 9.0 years ago by ▴ 370
6
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11
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3.9k
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Is there any differences between tophat, cufflinks command with and without GTF file?
cufflinks tophat rna-seq RNA-Seq
updated 3.2 years ago by 44k • written 9.1 years ago by ▴ 370
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3
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2.3k
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How to filter and annotate variants for influenza virus?
VCF GATK SNP
updated 2.3 years ago by 44k • written 9.2 years ago by ▴ 370
285 results • Page 6 of 6
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