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10
votes
5
replies
9.4k
views
6 follow
How to use GRCh38 as reference for Annotating the variants using Annovar?
Annovar VCF next-gen
updated 23 months ago by 45k • written 8.0 years ago by ▴ 310
0
votes
1
reply
988
views
Comment: Comment: How to make the data compatible for DESeq2?
3.1 years ago by Karma ▴ 310
1
vote
3
replies
988
views
How to make the data compatible for DESeq2?
StringTie counts DESeq2
updated 23 months ago by 45k • written 3.1 years ago by ▴ 310
15
votes
15
replies
4.5k
views
6 follow
RNA-Seq or Exome Seq for Clinical data analysis
RNA-Seq Exome next-gen-sequencing
updated 3.1 years ago by 45k • written 8.1 years ago by ▴ 310
0
votes
0
replies
4.8k
views
Comment: C: blast alignemnt query coverage
4.7 years ago by Karma ▴ 310
0
votes
0
replies
4.8k
views
Comment: C: Normalization of RNASeq read counts without conditions
5.1 years ago by Karma ▴ 310
1
vote
0
replies
1.6k
views
Answer: A: How to classify Tumor Mutation Burden into TMB high, medium and low groups ?
5.1 years ago by Karma ▴ 310
0
votes
0
replies
7.1k
views
Comment: C: How to rename multiple fastq files
5.6 years ago by Karma ▴ 310
0
votes
1
reply
4.4k
views
Comment: A: Where to download Normal exome bam for creating PoN (Panel of Normals) for cance
updated 5.6 years ago by 45k • written 5.6 years ago by ▴ 310
0
votes
1
reply
2.4k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
5.6 years ago by Karma ▴ 310
0
votes
0
replies
11k
views
Comment: A: What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With G
5.6 years ago by Karma ▴ 310
0
votes
1
reply
2.4k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
5.6 years ago by Karma ▴ 310
7
votes
12
replies
2.4k
views
How to pass arguments in a bash script to perform read alignment to the reference?
exome bwa bash
updated 23 months ago by 45k • written 5.6 years ago by ▴ 310
0
votes
2
replies
2.4k
views
Comment: C: How to pass arguments in a bash script to perform read alignment to the referenc
5.6 years ago by Karma ▴ 310
0
votes
0
replies
918
views
What is the possibility of replicates being different from other replicates of same sample?
microarray replicates mean-error
updated 23 months ago by 45k • written 5.6 years ago by ▴ 310
0
votes
0
replies
1.2k
views
How to perform normalization and calculate when there are multiple groups ?
RNA-Seq ANOVA Normalization
5.6 years ago by Karma ▴ 310
4
votes
0
replies
19k
views
Answer: A: Building Dict File for GATK
5.7 years ago by Karma ▴ 310
2
votes
1
reply
3.1k
views
Answer: Answer: Pipeline for exome sequencing
updated 2.6 years ago by 45k • written 5.7 years ago by ▴ 310
0
votes
0
replies
1.0k
views
Comment: C: What is configuration required for exome sequence analysis?
5.8 years ago by Karma ▴ 310
0
votes
2
replies
1.0k
views
What is configuration required for exome sequence analysis?
next-gen rna-seq configuration
5.8 years ago by Karma ▴ 310
0
votes
1
reply
12k
views
Comment: C: Converting SNP names from Illumina GSA array to rsID using PLINK
7.0 years ago by Karma ▴ 310
13
votes
13
replies
3.9k
views
6 follow
Where can I download Clinical or Medical Exome?
Exome RNA-Seq genome clinical_exome
updated 7.9 years ago by ▴ 200 • written 8.0 years ago by ▴ 310
2
votes
0
replies
12k
views
Answer: A: Issue with installing bowtie2
8.0 years ago by Karma ▴ 310
0
votes
0
replies
5.0k
views
Answer: A: Issue with bowtie2-align during installation of bowtie2
8.0 years ago by Karma ▴ 310
0
votes
1
reply
3.7k
views
Answer: A: Error while running rnaseq_pipeline.sh provided by hisat2
8.0 years ago by Karma ▴ 310
1
vote
0
replies
4.6k
views
Answer: A: How to split SRA/fastq files
updated 8.0 years ago by 153k • written 8.0 years ago by ▴ 310
1
vote
0
replies
4.5k
views
Comment: Comment: Converting sra to fastq
updated 3.1 years ago by 45k • written 8.0 years ago by ▴ 310
1
vote
0
replies
5.5k
views
Answer: A: How to get adapter information from SRA dump FASTQ file??
8.0 years ago by Karma ▴ 310
1
vote
0
replies
9.1k
views
Comment: C: VCF to ANNOVAR format
8.0 years ago by Karma ▴ 310
0
votes
0
replies
11k
views
Comment: C: What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With G
8.0 years ago by Karma ▴ 310
1
vote
1
reply
2.2k
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
8.0 years ago by Karma ▴ 310
0
votes
0
replies
2.2k
views
Answer: A: What are the differences (in terms of accuracy) in using default and custom inte
8.0 years ago by Karma ▴ 310
2
votes
0
replies
6.9k
views
Answer: A: How to extract a region from a reference sequence which does not align with a gi
8.0 years ago by Karma ▴ 310
0
votes
1
reply
2.7k
views
Comment: C: Quantification of a gene that is not in the reference genome
8.0 years ago by Karma ▴ 310
0
votes
0
replies
8.5k
views
Comment: C: Is there any way to generate interval list from available exome data?
8.0 years ago by Karma ▴ 310
11
votes
4
replies
8.5k
views
Is there any way to generate interval list from available exome data?
sequencing exome mutect2 gatk
updated 8.0 years ago by 166k • written 8.0 years ago by ▴ 310
0
votes
1
reply
15k
views
Comment: C: Should I Remove The Unmapped Reads From My Bam ?
8.0 years ago by Karma ▴ 310
0
votes
1
reply
15k
views
Comment: A: Should I Remove The Unmapped Reads From My Bam ?
8.0 years ago by Karma ▴ 310
2
votes
0
replies
6.8k
views
Comment: C: GATK Workflow for GATK in Cancer Samples
8.0 years ago by Karma ▴ 310
0
votes
1
reply
3.9k
views
Comment: C: How to generate FPKM value for each replicates?
8.1 years ago by Karma ▴ 310
0
votes
0
replies
3.9k
views
Comment: C: How to generate FPKM value for each replicates?
8.1 years ago by Karma ▴ 310
2
votes
6
replies
3.9k
views
How to generate FPKM value for each replicates?
RNA-Seq NGS cufflinks Tophat cuffdiff
updated 8.1 years ago by ▴ 270 • written 8.1 years ago by ▴ 310
2
votes
2
replies
1.8k
views
What is the algorithm or formula for converting SAM to BAM?
NGS Samtools SAM BAM
updated 8.1 years ago by 105k • written 8.1 years ago by ▴ 310
0
votes
1
reply
4.5k
views
Comment: C: RNA-Seq or Exome Seq for Clinical data analysis
8.1 years ago by Karma ▴ 310
0
votes
1
reply
4.8k
views
Comment: C: blast alignemnt query coverage
8.1 years ago by Karma ▴ 310
0
votes
1
reply
13k
views
Comment: C: Retrieving data from NCBI GEO and RNA-Seq Data Analysis
8.1 years ago by Karma ▴ 310
0
votes
1
reply
2.1k
views
Comment: C: What softwares can detect fusion genes from SNP-array data?
8.1 years ago by Karma ▴ 310
0
votes
1
reply
4.8k
views
Comment: C: blast alignemnt query coverage
8.1 years ago by Karma ▴ 310
2
votes
0
replies
2.2k
views
Answer: A: Targeting causative variant in Exome-Sequence data
8.1 years ago by Karma ▴ 310
0
votes
0
replies
4.5k
views
Comment: C: RNA-Seq or Exome Seq for Clinical data analysis
8.1 years ago by Karma ▴ 310
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