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0
votes
4
replies
635
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq gene-expression
updated 4 weeks ago by 82k • written 4 weeks ago by ▴ 140
0
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0
replies
196
views
beta coefficient improves after doing mediation analysis
coefficient mediation beta regression
8 weeks ago by rheab1230 ▴ 140
5
votes
4
replies
542
views
Manhattan plot for TWAS results
TWAS GWAS manhattan-plot
11 weeks ago by rheab1230 ▴ 140
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votes
3
replies
316
views
How to show that correlation from one method is more significant than other method?
p-value model-performance significance correlation
updated 3 months ago by ★ 1.4k • written 3 months ago by ▴ 140
1
vote
5
replies
737
views
how to convert beta effect size of SNP to a statistical value to be compared across tissues
beta-effect statistics SNP multi-variate
updated 6 months ago by 3.9k • written 6 months ago by ▴ 140
0
votes
2
replies
531
views
how to evaluate SNPs that are regulating same gene expression across multiple tissues
snp GTEx
updated 8 months ago by 3.9k • written 8 months ago by ▴ 140
0
votes
4
replies
1.2k
views
error while installing peertools
peertools
updated 9 months ago by ★ 27k • written 2.5 years ago by ▴ 140
0
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0
replies
359
views
snps being shared by gene in different tissues
mechanism shared colocalization snp tissues
10 months ago by rheab1230 ▴ 140
0
votes
0
replies
284
views
how to calculate predicted expression using weights from model file
predicted-expression R predixcan
updated 10 months ago by 43k • written 10 months ago by ▴ 140
0
votes
0
replies
459
views
How to testing of cv.glmnet model on the entire dataset rather than just training
cross-validation testing glmnet model
updated 11 months ago by 43k • written 11 months ago by ▴ 140
1
vote
5
replies
872
views
rank SNPs after elastic net modeling
SNPs R elastic-net modeling
updated 11 months ago by ★ 1.4k • written 11 months ago by ▴ 140
0
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0
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368
views
how to plot heatmap in r for all the gene across tissues to see distribution of snps
snp R heatmap
updated 11 months ago by 43k • written 11 months ago by ▴ 140
4
votes
6
replies
1.1k
views
calculate p value and associated z score for snp-gene pair
snp association gene pvalue
11 months ago by rheab1230 ▴ 140
1
vote
2
replies
547
views
how to look for interactions between different chromosomes
SNP interactions Gene HiC
11 months ago by rheab1230 ▴ 140
0
votes
1
reply
907
views
how to input bedpe file in IGV
IGV interaction input bedpe
updated 12 months ago by 161k • written 12 months ago by ▴ 140
0
votes
1
reply
566
views
how to look at interacting SNP for a gene using Hic contact map
peak interaction contact-map Hi-C
updated 12 months ago by ▴ 40 • written 12 months ago by ▴ 140
0
votes
0
replies
308
views
how to calculate minor allele frequency for each snp across samples
maf snp genotype
13 months ago by rheab1230 ▴ 140
0
votes
0
replies
349
views
how to plot distribution of SNPs across a set of genes based on distance between snp and gene
snp genes
updated 14 months ago by 43k • written 14 months ago by ▴ 140
0
votes
2
replies
648
views
how to look at interaction between SNP and gene
SNP Gene Hi-C
13 months ago by rheab1230 ▴ 140
0
votes
1
reply
507
views
how to import hdf5 Hi-C data into R using HiTC package
hdf5 importC R HiTC
updated 14 months ago by 13k • written 14 months ago by ▴ 140
0
votes
0
replies
316
views
how to get genomic range for hi-c datasets in hdf5 file
R hi-c contact-map genomic-ranges
updated 14 months ago by 43k • written 14 months ago by ▴ 140
0
votes
0
replies
315
views
how to interpret hi-c heatmap hdf5 file
heatmap maps hdf5 hi-c
14 months ago by rheab1230 ▴ 140
0
votes
0
replies
324
views
inquiry related to Hi-C data download
Hi-C datasets human brain-cortex interaction matrix
14 months ago by rheab1230 ▴ 140
0
votes
4
replies
903
views
how to create interacting Hi-C peaks
chromatin interaction gene Hi-C
14 months ago by rheab1230 ▴ 140
0
votes
0
replies
440
views
How to find association between a gene-rsid and AD
association Loci LD AD
14 months ago by rheab1230 ▴ 140
0
votes
0
replies
356
views
inquiry related to same SNP for a gene across for two tissues
snp relation tissue genetics gene
14 months ago by rheab1230 ▴ 140
0
votes
0
replies
329
views
chia-pet tutorial
snp gene chia-pet
14 months ago by rheab1230 ▴ 140
3
votes
3
replies
1.5k
views
how to use make.names commnad in r while using rbind function
R
14 months ago by rheab1230 ▴ 140
1
vote
1
reply
481
views
error while submitting a Rscript job through slurm
slurm R
updated 15 months ago by 43k • written 15 months ago by ▴ 140
4
votes
2
replies
731
views
installation of bioclite gives an error
R bioclite bioconductor Biocmanager
updated 12 months ago by 43k • written 15 months ago by ▴ 140
2
votes
2
replies
598
views
difference between chip-seq and association study
association chip-seq TWAS
15 months ago by rheab1230 ▴ 140
0
votes
0
replies
390
views
comparison of gene models across tissues
elastinet TWAS models association
16 months ago by rheab1230 ▴ 140
0
votes
3
replies
847
views
gwas summary statistics
AD gwas summary-statistics predixcan
updated 16 months ago by 22k • written 16 months ago by ▴ 140
3
votes
2
replies
577
views
genes associated with AD list
snp variants alzheimer association genes
16 months ago by rheab1230 ▴ 140
0
votes
1
reply
480
views
trans eqtl study for TWAS
twas eqtl GWAS bayesian
updated 14 months ago by ★ 3.0k • written 16 months ago by ▴ 140
5
votes
2
replies
943
views
how to loop through various dataframes in R
dataframe R
updated 16 months ago by 11k • written 16 months ago by ▴ 140
0
votes
2
replies
574
views
Inquiry related to processing multiple db file simulataneously
sql R
updated 14 months ago by 43k • written 17 months ago by ▴ 140
5
votes
11
replies
3.5k
views
plotting AF in vcf files
AF vcf plotting
updated 18 months ago by ▴ 270 • written 2.8 years ago by ▴ 140
5
votes
1
reply
693
views
Learning Linux advance commands
grep awk linux sed
updated 7 months ago by ▴ 60 • written 19 months ago by ▴ 140
0
votes
1
reply
905
views
Enhancer region
Chip-seq enhancer
updated 19 months ago by ▴ 20 • written 3.1 years ago by ▴ 140
0
votes
2
replies
576
views
develop model file after segregating vcf data into different ethnicity subgroup
model machine vcf learning ethnicity
19 months ago by rheab1230 ▴ 140
3
votes
3
replies
915
views
inverse normal transformation for gtex data
INT normalization gtex R
updated 18 months ago by ▴ 230 • written 19 months ago by ▴ 140
0
votes
0
replies
350
views
different sample IDs between vcf and gtex gene count file
sample vcf IDs gene gtex count
19 months ago by rheab1230 ▴ 140
0
votes
1
reply
390
views
filtering samples before normalization step
TMM depth gtex normalization sequencing
19 months ago by rheab1230 ▴ 140
0
votes
1
reply
688
views
edgeR normalization
TMM normalization edgeR read_counts
20 months ago by rheab1230 ▴ 140
0
votes
3
replies
1.2k
views
how to calculate %of missing genotype in vcf file
vcf imputation michigan genotype
updated 20 months ago by ★ 5.3k • written 20 months ago by ▴ 140
0
votes
1
reply
785
views
extract DS field from a genotype file
vcf bcftools genotype
updated 11 months ago by 43k • written 20 months ago by ▴ 140
4
votes
3
replies
1.3k
views
difference between different field info in vcf file format
format GT vcf filr DS
20 months ago by rheab1230 ▴ 140
0
votes
0
replies
437
views
Inquiry related to inverse quantile normalization
gtex normalization qtl genecount
21 months ago by rheab1230 ▴ 140
0
votes
0
replies
367
views
inquiry related to gtex normalization
gene GTEX expression tissue normalization brain
21 months ago by rheab1230 ▴ 140
101 results • Page 1 of 3
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