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5
votes
15
replies
4.9k
views
6 follow
Why are there many reads with green color in IGV of RNA-seq data?
rna-seq IGV mapping
updated 4 weeks ago by • 0 • written 4.8 years ago by ▴ 160
0
votes
3
replies
623
views
Calculation of λ1000 for a continuous trait
SNP GWAS inflation
5 weeks ago by Apprentice ▴ 160
7
votes
15
replies
1.0k
views
6 follow
I would like to exclude rRNA in RSEM and quantify other genes.
STAR RNA-seq RSEM
updated 3 months ago by ★ 5.8k • written 3 months ago by ▴ 160
0
votes
2
replies
322
views
I would like to add a human gene sequence to a mouse reference genome
reference-genome mouse RNA-seq
updated 3 months ago by 43k • written 3 months ago by ▴ 160
0
votes
0
replies
304
views
If the names of miRNAs are the same for different species, are they the same sequence?
miRNA
4 months ago by Apprentice ▴ 160
0
votes
0
replies
217
views
Method for detecting X-chromosome aneuploidy from SNP array data
SNP aneuploidies
6 months ago by Apprentice ▴ 160
2
votes
3
replies
923
views
LD score table for East Asians used for BOLT-LMM
BOLT-LMM SNP LDSC
updated 7 months ago by 3.9k • written 8 months ago by ▴ 160
2
votes
2
replies
463
views
Is it possible to detect fusion genes by either stranded or unstranded RNA-seq?
RNA-seq STAR-Fusion
8 months ago by Apprentice ▴ 160
0
votes
0
replies
293
views
PLINK format file for BOLT-LMM
BOLT-LMM SNP
8 months ago by Apprentice ▴ 160
2
votes
3
replies
921
views
RSEM uses different gene lengths for each sample.
STAR RNA-seq RSEM
8 months ago by Apprentice ▴ 160
3
votes
8
replies
1.1k
views
Is RSEM required for RNA-seq data analysis using STAR and edgeR?
edgeR RNA-seq STAR
9 months ago by Apprentice ▴ 160
0
votes
0
replies
305
views
Popcorn using SNPs with extremely low P-value
Popcorn SNP
10 months ago by Apprentice ▴ 160
2
votes
1
reply
561
views
PRSice-2 using SNPs with extremely low P-value
PRSice-2 SNP
10 months ago by Apprentice ▴ 160
0
votes
0
replies
377
views
I want to set the null hypothesis for the test of genetic correlation to rg=1.
correlation LDSC genetic
11 months ago by Apprentice ▴ 160
1
vote
2
replies
822
views
Which 1000 genomes 30x files should I use for imputation?
1000genomes imputation SNP
15 months ago by Apprentice ▴ 160
1
vote
2
replies
785
views
I want to identify the version of MethylationEPIC from the idat file.
Microarray methylation DNA
17 months ago by Apprentice ▴ 160
0
votes
1
reply
540
views
Application of repeated measurement data to missForest
R missForest
21 months ago by Apprentice ▴ 160
2
votes
2
replies
598
views
Significance of giving read group when using hisat2
RNA-Seq
2.1 years ago by Apprentice ▴ 160
5
votes
3
replies
1.2k
views
Unable to get all Uniprot IDs corresponding to Ensembl ID
Uniprot biomaRt
2.2 years ago by Apprentice ▴ 160
0
votes
4
replies
883
views
Is it possible to infer from miRNA-seq fastq data which species it is obtained from?
miRNA-seq
2.2 years ago by Apprentice ▴ 160
4
votes
4
replies
1.7k
views
Can AlphaFold v2 predict the structure of a tetramer?
AlphaFold2
updated 2.2 years ago by ★ 2.5k • written 2.2 years ago by ▴ 160
0
votes
2
replies
741
views
How does gexpr function in ballgown package calculate the gene expression level from transcript expression levels?
ballgown FPKM R
updated 2.4 years ago by 82k • written 2.4 years ago by ▴ 160
1
vote
2
replies
851
views
Can AlphaFold2 be used to predict DNA binding from fasta sequences?
DNA-binding AlphaFold2 protein
2.4 years ago by Apprentice ▴ 160
0
votes
0
replies
433
views
Applying data including both chrX variants and autosomal variants to SKAT
SKAT variant
2.4 years ago by Apprentice ▴ 160
0
votes
2
replies
1.6k
views
Imputation of X chromosome non-PAR for male subjects
SNP imputation X chromsoome
2.7 years ago by Apprentice ▴ 160
0
votes
2
replies
1.3k
views
Reference panel data to be used for GCTA-COJO
SNP GCTA
2.3 years ago by Apprentice ▴ 160
0
votes
0
replies
775
views
Preparation of a matrix of expression values of RNA-seq for input data of ssGSEA
ssGSEA RNA-seq
3.0 years ago by Apprentice ▴ 160
0
votes
0
replies
648
views
LD score regression of data including SNPs with extremely low P-value
heritability SNP LDSC
3.0 years ago by Apprentice ▴ 160
0
votes
4
replies
847
views
How to draw survival curve marked at one censoring time for each patient
R survival kaplan-meier
updated 3.1 years ago by 11k • written 3.1 years ago by ▴ 160
1
vote
2
replies
1.3k
views
Annotation of pLI scores by using ANNOVAR
SNP pLI ANNOVAR
updated 3.2 years ago by ▴ 280 • written 3.2 years ago by ▴ 160
0
votes
0
replies
773
views
Can't GCTA use --bgen option for MLMA?
SNP
3.3 years ago by Apprentice ▴ 160
3
votes
4
replies
911
views
Does Tophat-fusion-post need to install old blast and blast+?
RNA-Seq fusion gene
3.3 years ago by Apprentice ▴ 160
1
vote
6
replies
1.6k
views
Why does the iGenomes have decoy for only GRCh38.
RNA-Seq resequencing
written 3.3 years ago by ▴ 160
5
votes
4
replies
1.7k
views
Trimmomatic MINLEN option doesn't work
RNA-Seq
updated 3.3 years ago by 3.2k • written 3.3 years ago by ▴ 160
2
votes
2
replies
1.7k
views
URL of omictools is not available
omictools
3.5 years ago by Apprentice ▴ 160
2
votes
0
replies
726
views
Detection of excess IBD segments in patients
IBD sgements SNP
3.6 years ago by Apprentice ▴ 160
2
votes
0
replies
923
views
Calculation of frequency of each haplotype from .hap file
SNP Haplotype
3.6 years ago by Apprentice ▴ 160
1
vote
2
replies
707
views
Definition of + and - strands for human genome
genome
3.8 years ago by Apprentice ▴ 160
1
vote
2
replies
999
views
How to calculate covariance between betas for GxE interaction using PLINK 2.0
SNP interaction
updated 3.9 years ago by 10k • written 3.9 years ago by ▴ 160
6
votes
10
replies
4.4k
views
How to export a network of a specific module to Cytoscape - Consensus modules / multiExpr
gene expression WGCNA
updated 2.9 years ago by 87k • written 5.2 years ago by ▴ 160
4
votes
4
replies
2.6k
views
Why doesn't wgEncodeGencodeBasicV24lift37.txt.gz have annotation information of some genes?
genome gene
written 7.7 years ago by ▴ 160
6
votes
9
replies
5.2k
views
How to trim poly-sequence before or after trimming by Trimmomatic.
rna-seq
updated 4.7 years ago by 47k • written 4.7 years ago by ▴ 160
3
votes
6
replies
1.7k
views
Sex inconsistency in 1000 genomes phase 3 TSI samples
SNP
updated 5.0 years ago by 10k • written 5.0 years ago by ▴ 160
0
votes
0
replies
1.2k
views
How to convert DS value for chrX non-PAR SNPs in male
SNP imputation snp chrX PAR
5.1 years ago by Apprentice ▴ 160
1
vote
2
replies
856
views
Determination of haplotypes based on genotype data of 2 SNPs
snp
5.1 years ago by Apprentice ▴ 160
0
votes
5
replies
6.8k
views
AttributeError: 'dict' object has no attribute '__NUMPY_SETUP__' in install of Popcorn
snp python
5.6 years ago by Apprentice ▴ 160
3
votes
1
reply
1.4k
views
How to investigate reference and alternative alleles of many SNPs
SNP
5.7 years ago by Apprentice ▴ 160
2
votes
1
reply
3.5k
views
How to set genotypes with low GQ to missing. in a vcf file.
SNP genome sequence
updated 6.5 years ago by ▴ 20 • written 7.4 years ago by ▴ 160
1
vote
1
reply
4.8k
views
How to add DS genotype in vcf file.
SNP genome sequencing
updated 6.8 years ago by ▴ 10 • written 7.4 years ago by ▴ 160
0
votes
0
replies
1.4k
views
I2 of the fixed effect poisson model using of metafor
R
updated 6.9 years ago by 20 • written 7.0 years ago by ▴ 160
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