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547
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Do we have any disease specific SNVs database?
cancer mutation SNP SNV database
updated 14 months ago by 9.7k • written 14 months ago by • 0
1
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2
replies
584
views
How should I interpret FB_Plot in microarray analysis?
microarray analysis control quality
updated 15 months ago by 43k • written 15 months ago by • 0
0
votes
6
replies
982
views
zero byte files in sratoolkit.3.0.1-ubuntu64
fastq sra-toolkit rna-seq
updated 16 months ago by • 0 • written 16 months ago by • 0
7
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4
replies
1.0k
views
Processed RNA seq data publicly available
RNA-seq
updated 15 months ago by 43k • written 16 months ago by • 0
0
votes
3
replies
753
views
Combining multiple datasets increases the fgsea p-value
enrichment fgsea dataset
updated 17 months ago by ★ 1.9k • written 17 months ago by • 0
0
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0
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753
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Comment: Comment: Combining multiple datasets increases the fgsea p-value
17 months ago by Nemo • 0
0
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1
reply
641
views
Comment: Comment: What is the default/best practice to map prob IDs to gene IDs
17 months ago by Nemo • 0
2
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3
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641
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What is the default/best practice to map prob IDs to gene IDs
gsea map gene prob
updated 17 months ago by ★ 2.2k • written 17 months ago by • 0
2
votes
2
replies
614
views
Question regarding pathways and cell types
signaling types cell pathway
updated 18 months ago by 4.2k • written 18 months ago by • 0
0
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0
replies
682
views
Comment: Comment: predict gain/ loss of function from mutation
18 months ago by Nemo • 0
0
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1
reply
682
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Comment: Comment: predict gain/ loss of function from mutation
18 months ago by Nemo • 0
0
votes
3
replies
682
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predict gain/ loss of function from mutation
protein mutation loss gain
18 months ago by Nemo • 0
2
votes
1
reply
535
views
Get variant type from genotype data
type missense mutation nonsense variant
updated 18 months ago by ★ 4.7k • written 18 months ago by • 0
0
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1
reply
753
views
Comment: Comment: Htseq-count output file having a high number of __not_aligned
20 months ago by Nemo • 0
0
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3
replies
753
views
Htseq-count output file having a high number of __not_aligned
read htseq-count human counts genome alignment
updated 20 months ago by ★ 1.4k • written 20 months ago by • 0
0
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0
replies
272
views
The region for RNase P gene in human genome
gene genome read count
20 months ago by Nemo • 0
0
votes
1
reply
441
views
How parse collectReadCounts output in r?
CollectReadCounts r gatk rstudio
updated 20 months ago by 100k • written 20 months ago by • 0
0
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0
replies
769
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Comment: Comment: Get distribution of enrichment scores across all permutations in fgsea
20 months ago by Nemo • 0
3
votes
1
reply
487
views
aligning RNA seq data against human genome
variant calling rna-seq alignment
updated 20 months ago by 142k • written 20 months ago by • 0
0
votes
1
reply
769
views
Comment: Comment: Get distribution of enrichment scores across all permutations in fgsea
20 months ago by Nemo • 0
0
votes
3
replies
769
views
Get distribution of enrichment scores across all permutations in fgsea
enrichment gsea pathway analysis fgsea permutation
20 months ago by Nemo • 0
0
votes
1
reply
562
views
Normalizing read counts while having multiple group of samples with different conditions
FPKM normalizing rna-seq read-count alignment
updated 20 months ago by 11k • written 20 months ago by • 0
0
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0
replies
471
views
Comment: Comment: Normalized read counts with FPKM
20 months ago by Nemo • 0
0
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1
reply
471
views
Normalized read counts with FPKM
Read FPKM Normalize count RNA-Sequnce
20 months ago by Nemo • 0
0
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1
reply
585
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Comment: Comment: How can I get the number of reads per variant in hisat2?
21 months ago by Nemo • 0
1
vote
3
replies
585
views
How can I get the number of reads per variant in hisat2?
alignemnt variant gatk covid hisat2
updated 21 months ago by 3.2k • written 21 months ago by • 0
0
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1
reply
749
views
Comment: Comment: What is chrom and position values in Wuhan-Hu-1 genome data
21 months ago by Nemo • 0
2
votes
3
replies
749
views
What is chrom and position values in Wuhan-Hu-1 genome data
alignemnt variant gatk covid hisat2
updated 21 months ago by 142k • written 21 months ago by • 0
0
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0
replies
924
views
Comment: Comment: Why there are variants of covid (delta and omicron) in normal samples?
21 months ago by Nemo • 0
0
votes
1
reply
924
views
Comment: Comment: Why there are variants of covid (delta and omicron) in normal samples?
21 months ago by Nemo • 0
0
votes
1
reply
924
views
Comment: Comment: Why there are variants of covid (delta and omicron) in normal samples?
21 months ago by Nemo • 0
1
vote
6
replies
924
views
Why there are variants of covid (delta and omicron) in normal samples?
alignemnt variant gatk covid hisat2
21 months ago by Nemo • 0
0
votes
1
reply
1.1k
views
Comment: Comment: What is --known-sites in BaseRecalibration of GATK
21 months ago by Nemo • 0
0
votes
1
reply
1.1k
views
Comment: Comment: What is --known-sites in BaseRecalibration of GATK
21 months ago by Nemo • 0
0
votes
5
replies
1.1k
views
What is --known-sites in BaseRecalibration of GATK
rna-seq gatk variants site baserecalibration
updated 21 months ago by 3.2k • written 21 months ago by • 0
2
votes
1
reply
691
views
Can MarkDuplicates of Picard be used for RNA reads?
variants MarkDuplicates rna picard
updated 21 months ago by 3.9k • written 21 months ago by • 0
1
vote
1
reply
702
views
Problem in MarkDuplicates of picard
variants MarkDuplicates picard rna
updated 21 months ago by 161k • written 21 months ago by • 0
0
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1
reply
1.1k
views
Comment: Comment: using gatk haplotypecaller for variants extraction
21 months ago by Nemo • 0
0
votes
3
replies
1.1k
views
using gatk haplotypecaller for variants extraction
variants gatk haplotypecaller rna-seq
updated 21 months ago by 43k • written 21 months ago by • 0
0
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0
replies
672
views
Comment: Comment: Splice aware or not for RNA sequence data
21 months ago by Nemo • 0
1
vote
2
replies
672
views
Splice aware or not for RNA sequence data
splice RNA hisat2 sequence alignment
21 months ago by Nemo • 0
0
votes
0
replies
357
views
CalibrateDragstrModel - Not enough cases to estimate parameters, using defaults
dragen-os calibration gatk dragen alignment
21 months ago by Nemo • 0
0
votes
0
replies
393
views
Control detected variants for normal samples in dragen
calling illumina variants dragen alignment
21 months ago by Nemo • 0
0
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9
replies
1.9k
views
Not producing sam file in hisat2
sam hisat2 header alignment
updated 20 months ago by ▴ 30 • written 21 months ago by • 0
0
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0
replies
1.9k
views
Answer: Answer: Not producing sam file in hisat2
21 months ago by Nemo • 0
0
votes
1
reply
1.9k
views
Comment: Comment: Not producing sam file in hisat2
21 months ago by Nemo • 0
0
votes
0
replies
1.9k
views
Comment: Comment: Not producing sam file in hisat2
21 months ago by Nemo • 0
0
votes
0
replies
1.6k
views
Comment: Comment: Adding @RG header line to bam and sam files in hisat2
21 months ago by Nemo • 0
0
votes
1
reply
1.9k
views
Comment: Comment: Not producing sam file in hisat2
21 months ago by Nemo • 0
0
votes
1
reply
1.6k
views
Comment: Comment: Adding @RG header line to bam and sam files in hisat2
21 months ago by Nemo • 0
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