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10
votes
5
replies
7.5k
views
6 follow
How to use GRCh38 as reference for Annotating the variants using Annovar?
Annovar VCF next-gen
updated 6 months ago by 43k • written 6.6 years ago by ▴ 310
0
votes
1
reply
618
views
Comment: Comment: How to make the data compatible for DESeq2?
20 months ago by Karma ▴ 310
1
vote
3
replies
618
views
How to make the data compatible for DESeq2?
StringTie counts DESeq2
updated 5 months ago by 43k • written 20 months ago by ▴ 310
15
votes
15
replies
3.4k
views
6 follow
RNA-Seq or Exome Seq for Clinical data analysis
RNA-Seq Exome next-gen-sequencing
updated 20 months ago by 43k • written 6.7 years ago by ▴ 310
0
votes
0
replies
4.0k
views
Comment: C: blast alignemnt query coverage
3.3 years ago by Karma ▴ 310
0
votes
0
replies
4.2k
views
Comment: C: Normalization of RNASeq read counts without conditions
3.6 years ago by Karma ▴ 310
1
vote
0
replies
1.2k
views
Answer: A: How to classify Tumor Mutation Burden into TMB high, medium and low groups ?
3.6 years ago by Karma ▴ 310
0
votes
0
replies
5.3k
views
Comment: C: How to rename multiple fastq files
4.2 years ago by Karma ▴ 310
0
votes
1
reply
4.0k
views
Comment: A: Where to download Normal exome bam for creating PoN (Panel of Normals) for cance
updated 4.2 years ago by 43k • written 4.2 years ago by ▴ 310
0
votes
1
reply
1.6k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
4.2 years ago by Karma ▴ 310
0
votes
0
replies
10k
views
Comment: A: What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With G
4.2 years ago by Karma ▴ 310
0
votes
1
reply
1.6k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
4.2 years ago by Karma ▴ 310
7
votes
12
replies
1.6k
views
How to pass arguments in a bash script to perform read alignment to the reference?
exome bwa bash
updated 5 months ago by 43k • written 4.2 years ago by ▴ 310
0
votes
2
replies
1.6k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
4.2 years ago by Karma ▴ 310
0
votes
0
replies
717
views
What is the possibility of replicates being different from other replicates of same sample?
microarray replicates mean-error
updated 5 months ago by 43k • written 4.2 years ago by ▴ 310
0
votes
0
replies
992
views
How to perform normalization and calculate when there are multiple groups ?
RNA-Seq ANOVA Normalization
4.2 years ago by Karma ▴ 310
4
votes
0
replies
12k
views
Answer: A: Building Dict File for GATK
4.3 years ago by Karma ▴ 310
2
votes
1
reply
2.4k
views
Answer: Answer: Pipeline for exome sequencing
updated 14 months ago by 43k • written 4.3 years ago by ▴ 310
0
votes
0
replies
694
views
Comment: C: What is configuration required for exome sequence analysis?
4.4 years ago by Karma ▴ 310
0
votes
2
replies
694
views
What is configuration required for exome sequence analysis?
next-gen rna-seq configuration
4.4 years ago by Karma ▴ 310
0
votes
1
reply
10k
views
Comment: C: Converting SNP names from Illumina GSA array to rsID using PLINK
5.6 years ago by Karma ▴ 310
13
votes
13
replies
3.1k
views
6 follow
Where can I download Clinical or Medical Exome?
Exome RNA-Seq genome clinical_exome
updated 6.5 years ago by ▴ 200 • written 6.5 years ago by ▴ 310
2
votes
0
replies
11k
views
Answer: A: Issue with installing bowtie2
6.5 years ago by Karma ▴ 310
0
votes
0
replies
4.3k
views
Answer: A: Issue with bowtie2-align during installation of bowtie2
6.5 years ago by Karma ▴ 310
0
votes
1
reply
2.6k
views
Answer: A: Error while running rnaseq_pipeline.sh provided by hisat2
6.5 years ago by Karma ▴ 310
1
vote
0
replies
4.0k
views
Answer: A: How to split SRA/fastq files
updated 6.5 years ago by 141k • written 6.5 years ago by ▴ 310
1
vote
0
replies
3.7k
views
Comment: Comment: Converting sra to fastq
updated 20 months ago by 43k • written 6.5 years ago by ▴ 310
1
vote
0
replies
5.0k
views
Answer: A: How to get adapter information from SRA dump FASTQ file??
6.5 years ago by Karma ▴ 310
1
vote
0
replies
7.8k
views
Comment: C: VCF to ANNOVAR format
6.6 years ago by Karma ▴ 310
0
votes
0
replies
10k
views
Comment: C: What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With G
6.6 years ago by Karma ▴ 310
1
vote
1
reply
1.8k
views
What are the differences (in terms of accuracy) in using default and custom interval list (-L) for variant calling on exome sequencing data?
RNA-Seq sequencing exome sequencing
6.6 years ago by Karma ▴ 310
0
votes
0
replies
1.8k
views
Answer: A: What are the differences (in terms of accuracy) in using default and custom inte
6.6 years ago by Karma ▴ 310
2
votes
0
replies
6.1k
views
Answer: A: How to extract a region from a reference sequence which does not align with a gi
6.6 years ago by Karma ▴ 310
0
votes
1
reply
1.9k
views
Comment: C: Quantification of a gene that is not in the reference genome
6.6 years ago by Karma ▴ 310
0
votes
0
replies
7.6k
views
Comment: C: Is there any way to generate interval list from available exome data?
6.6 years ago by Karma ▴ 310
11
votes
4
replies
7.6k
views
Is there any way to generate interval list from available exome data?
sequencing exome mutect2 gatk
updated 6.6 years ago by 161k • written 6.6 years ago by ▴ 310
0
votes
1
reply
13k
views
Comment: C: Should I Remove The Unmapped Reads From My Bam ?
6.6 years ago by Karma ▴ 310
0
votes
1
reply
13k
views
Comment: A: Should I Remove The Unmapped Reads From My Bam ?
6.6 years ago by Karma ▴ 310
2
votes
0
replies
6.0k
views
Comment: C: GATK Workflow for GATK in Cancer Samples
6.6 years ago by Karma ▴ 310
0
votes
1
reply
3.2k
views
Comment: C: How to generate FPKM value for each replicates?
6.7 years ago by Karma ▴ 310
0
votes
0
replies
3.2k
views
Comment: C: How to generate FPKM value for each replicates?
6.7 years ago by Karma ▴ 310
2
votes
6
replies
3.2k
views
How to generate FPKM value for each replicates?
RNA-Seq NGS cufflinks Tophat cuffdiff
updated 6.7 years ago by ▴ 260 • written 6.7 years ago by ▴ 310
2
votes
2
replies
1.6k
views
What is the algorithm or formula for converting SAM to BAM?
NGS Samtools SAM BAM
updated 6.7 years ago by 104k • written 6.7 years ago by ▴ 310
0
votes
1
reply
3.4k
views
Comment: C: RNA-Seq or Exome Seq for Clinical data analysis
6.7 years ago by Karma ▴ 310
0
votes
1
reply
4.0k
views
Comment: C: blast alignemnt query coverage
6.7 years ago by Karma ▴ 310
0
votes
1
reply
11k
views
Comment: C: Retrieving data from NCBI GEO and RNA-Seq Data Analysis
6.7 years ago by Karma ▴ 310
0
votes
1
reply
1.5k
views
Comment: C: What softwares can detect fusion genes from SNP-array data?
6.7 years ago by Karma ▴ 310
0
votes
1
reply
4.0k
views
Comment: C: blast alignemnt query coverage
6.7 years ago by Karma ▴ 310
2
votes
0
replies
1.7k
views
Answer: A: Targeting causative variant in Exome-Sequence data
6.7 years ago by Karma ▴ 310
0
votes
0
replies
3.4k
views
Comment: C: RNA-Seq or Exome Seq for Clinical data analysis
6.7 years ago by Karma ▴ 310
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