Sanjeev

Hi Gabriel, Thanks for sharing python package for emacs. I downloaded your package, and added load-file, and load-path as guided on instructions of your repository. However, I'm unable to get...

is there a way to add a matrix?

1

I'd be interested to add a table/matrix (say 4 cols and 3 rows) in the hexSticker.

perform anova on deconvoluted single cell output

2

Dear music developers, I got deconvoluted output from MuSic R library. I am interested in performing differential gene expression of the deconvoluted result. I have following outputs upon deconvolution: Est.prop.weighted,...

single cell samples from different runs || how to proceed

1

Hi @xuranw I am new to single-cell analysis, would be interested to use music to perform imputation using bulk rna-seq data. I would be using publicly available single-cell datasets. One...

EAPCTS runs analysis if wrong kinship is provided

2

Hi team, I'm using EAPCTS v 3.3.1 (~/bin/EPACTS/lib/epactsR/DESCRIPTION). There may be a bug with it as analysis is conducted when wrong path/file for kinship is provided with skat-o. I'm using...

Request: parameter for input file containing bam files

1

Hi, I see that GangSTR allows list of bam files as comma separated `--bam`. It would be great if tool can allow a parameter that takes file containing bam files...

Create GDS file from imputed data using dosage || No variable 'annotation/format/DS' in the FORMAT field.

2

Hi @zhengxw-ab I am interested to create GDS file using VCF from imputed data. I would like to keep dosage information intact in this process. I use command as: `...

prepare data from single cell objects for multiple subjects?

1

hi scdc team, Thank you for the tool. I am interested in using your tool to perform deconvolution on bulk rna sequencing data (in-house) and single-cell from publicly available repositories....

Hi developer, Thanks for this library. I would like to process data where sample size is 200K+ using following function: `readPlinkToMatrixByIndex(plinkFilePrefix, sampleIndex, markerIndex)` I would like know: Does the plink...

local ancestry for each input snp

2

Hello, My input file has 21K snps on CHR 21 for a three-way admixed population. I phase my input data and follow steps necessary before running RFmix V2. However, my...