User: Begali

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Begali0
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Posts by Begali

<prev • 7 results • page 1 of 1 • next >
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CNV detection in mRNA , SNP array using R
... Dear all; kindly I would like to receive about any hints for R pacakge or tutorial in order to be able to detect germline copy number variation in mRNA data as well as in SNP array... Moreover, I have only one type of sample, file for each patient related to healthy tissue in different format ( f ...
R written 11 months ago by Begali0
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Comment: C: lncRNA Region analysis
... @ATpoint Thanks for your link I have mRNA-seq as well as DNA-seq and my task is to identify analysis lncRNA such as 1- lncRNA expression in multiple samples 2- annotated genes with in lncRNA seq or near of exons and so on 3- SNPs in lncRNA Another Q could lncRNA analyzed using mRNA or DNA-seq an ...
written 12 months ago by Begali0
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lncRNA Region analysis
... Dear all I would like to analyze lncRNA for multiples samples, Kindly could you please share me best tutorial and workflow in order to perform as I am new I do not know which one will be the best and available tutorial to use its workflow with best regards ...
tools lncrna written 12 months ago by Begali0 • updated 12 months ago by WouterDeCoster44k
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Answer: A: SNP calling with SAMtools on multiple samples
... Hi @Pierre Lindenbaum how if I merged all bam files in one single bam that containll samples with their RG tag, then call varaints with samtools and bcftools Thanks for your attention ...
written 15 months ago by Begali0
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Error during mapping using bwa mem
... Hi , any suggestion to fix this error during using bwa mem by this command: bwa mem hg38.fasta Z#1.fq > Z#1.sam Got error [bwt_restore_bwt] Failed to allocate 3217346964 bytes at bwt.c line 452: Cannot allocate memory how to fix it, I have already tried to update bwa but still same e ...
software error alignment written 2.0 years ago by Begali0 • updated 2.0 years ago by genomax85k
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Q for how to extrcat unique information of vcf.file
... hi I am new for tools such as samtools, bcftools, BWA and GATK and I am working on RADSeq I reach for point call variants which include ( INDEL and SNP) now time to filter them I could not do that by GATK with VQSR which reuired resources bundle folder which are not available for my organisms pla ...
alignment next-gen sequence snp written 3.1 years ago by Begali0
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Answer: A: Extracting Specific Reads From Vcf File
... hi I am new for tools such as samtools, bcftools, BWA and GATK and I am working on RADSeq I reach for point call variants which include ( INDEL and SNP) now time to filter them I could not do that by GATK with VQSR which reuired resources bundle folder which are not available for my organisms pla ...
written 3.1 years ago by Begali0

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