User: yussab

gravatar for yussab
yussab10
Reputation:
10
Status:
New User
Location:
Italy
Last seen:
1 week, 3 days ago
Joined:
4 months, 2 weeks ago
Email:
a***********@hotmail.it

I come from a multicultural background, my life experiences have given me a broad point of view and mindset that I have applied to everything I do.
During my studies I achieved a 360 view of biopharma industry. Starting from basic research to the elaboration of big data on RNA-seq and the economic skills to exploit invention through patents and marketing strategies.

Posts by yussab

<prev • 15 results • page 1 of 2 • next >
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GATK GenomicDBImport missing argument --intervals for Illumina HiSeq Exome??
... Hi everyone, I'm using the GATK germline short variant discovery (SNPs + Indels) pipeline. https://gatk.broadinstitute.org/hc/en-us/articles/360035535932-Germline-short-variant-discovery-SNPs-Indels- After using HaplotypeCaller to call the GVCF, I'm not consolidating the variants using GenomicsDB ...
exome gatk genomicdbimport illumina written 26 days ago by yussab10
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Comment: C: Reproduce Genome in a Bottle analysis from NA12878 fastq?
... Hi a.alnawfal.1992, thank you for your kind answer... So it's not necessary to process the Variant Filtration/Refine Genotypes/Variant Annotation steps??? In this way you use raw vcf snps + indels?? ...
written 26 days ago by yussab10
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Answer: A: There is a convenient way to use not up-to-date packages in R?
... R version 3.6.3 (2020-02-29) -- "Holding the Windsock" Copyright (C) 2020 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) I was able to install the packages by: 1)Downloading Package Source from Package Archive 2)Installing the tar.gz from R Studio; Tools --> ...
written 5 weeks ago by yussab10
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Comment: C: There is a convenient way to use not up-to-date packages in R?
... I tried to install the packages but nothing changed. Furthermore the packages are loaded when: library(InSilicoDb). I can't figure out what is the problem, the main difference that I noticed is that you're using miniconda3... ...
written 5 weeks ago by yussab10
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Comment: C: There is a convenient way to use not up-to-date packages in R?
... > sessionInfo() R version 3.6.3 (2020-02-29) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04.1 LTS Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0 LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0 locale: [1] LC_CTYPE=en_US.UTF-8 ...
written 5 weeks ago by yussab10
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Comment: C: There is a convenient way to use not up-to-date packages in R?
... 1) thank you very much , I followed your instruction and now i don't have any Rtools WARNING on my Windows machine 2) I also have a Linux Machine with Ubuntu 20.04 and R version 3.6.3. > install.packages('https://www.bioconductor.org/packages/2.13/bioc/src/contrib/inSilicoDb_1.10.1.tar.gz') Insta ...
written 5 weeks ago by yussab10
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Comment: C: There is a convenient way to use not up-to-date packages in R?
... I get WARNING about Rtools also for other packages, but they get installed anyway. ...
written 5 weeks ago by yussab10
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Comment: C: There is a convenient way to use not up-to-date packages in R?
... I get the following error, anyway I'm not able to install R tools: WARNING: Rtools is required to build R packages but is not currently installed. Please download and install the appropriate version of Rtools before proceeding: https://cran.rstudio.com/bin/windows/Rtools/ Installing package into ‘ ...
written 5 weeks ago by yussab10
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There is a convenient way to use not up-to-date packages in R?
... Hi everybody, I'm trying to replicate an article from 2018, in which they used these two packages: InSilicoDb: https://www.bioconductor.org/packages//2.13/bioc/html/inSilicoDb.html InSilicoMerging : https://www.bioconductor.org/packages//2.13/bioc/html/inSilicoDb.html I'm not able to install tho ...
installation R packages written 5 weeks ago by yussab10
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Answer: A: Error in GATK GenomicsDBImport
... I went through the GATK GenomicDBImport and this is the solution You can find all the useful information at the link below. REFERENCE: https://gatk.broadinstitute.org/hc/en-us/articles/360036883491-GenomicsDBImport **IMPORTANT: "The --genomicsdb-workspace-path must point to a non-existent or empty ...
written 6 weeks ago by yussab10

Latest awards to yussab

Scholar 5 weeks ago, created an answer that has been accepted. For A: There is a convenient way to use not up-to-date packages in R?
Autobiographer 11 weeks ago, has more than 80 characters in the information field of the user's profile.

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