User: gskbioinfo143

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India
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Posts by gskbioinfo143

<prev • 70 results • page 1 of 7 • next >
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Comment: C: How to convert fastq file with raw reads to draft genome fastq file ?
... http://spades.bioinf.spbau.ru/release3.10.1/manual.html we cant do reference based mapping (assembly) with spades as given in spades manuel thanks need your suggestions ...
written 14 months ago by gskbioinfo14350
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Comment: C: How to convert fastq file with raw reads to draft genome fastq file ?
... Yes sir, im actually looking for reference based mapping of reads ...
written 14 months ago by gskbioinfo14350
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How to convert fastq file with raw reads to draft genome fastq file ?
... Hi sir/mam, i have done mapping of Streptococcus pneumonia raw sequenced data with reference Streptococcus pneumonia ATCC 700669 using bowtie2. i have converted from .bam file to .fasta file. the fasta file it has the raw reads - that is the fasta file just stripped of the quality scores know how t ...
fastq written 14 months ago by gskbioinfo14350 • updated 13 months ago by Biostar ♦♦ 20
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MLST and resfinder analysis got failed
... Dear sir/mam, i have query regarding MLST analysis and Resfinder analysis in below servers https://cge.cbs.dtu.dk/services/MLST/ https://cge.cbs.dtu.dk/services/ResFinder/ i have submitted my streptococcus Pneumonia illumina sequenced paired end data for analysis and job gets failed repeatedly(s ...
resfinder mlst written 14 months ago by gskbioinfo14350 • updated 14 months ago by Biostar ♦♦ 20
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Comment: C: How to do Genome Annotation?
... Hi Thanks for the suggestions i need help from this paper http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0169370 where they have done Genome annotation using GB, MLST analysis i have query how to get fasta sequence data from mapping alignment .bam file after converting to.fa f ...
written 16 months ago by gskbioinfo14350
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How to do Genome Annotation?
... Dear sir/mam, In need help regarding Genome Annotation. I have Streptococcus Pneumonia .Fastq data, i have done mapping using bowtie 2 tool and aligned data i converted from .bam file to .fasta format. Know how to do Genome annotation using GeneDB or other tools. Need help Thank you ...
genomeannotation written 17 months ago by gskbioinfo14350 • updated 17 months ago by jrj.healey5.0k
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Comment: C: peakannotation by peakAnalyzer
... me to facing the same u got any solution for this ...
written 18 months ago by gskbioinfo14350
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removing PCR duplicates from MedipSeq Data
... Dear all i have paired end data of medip seq from illumina platform. i have done mapping using bowtie2 and after mapping is it necessary to **remove PCR Duplicates** from bam file. if it is not removed whether it will effect in DMR or peak calling analysis. Need help Thank you ...
removepcrduplicates medipseq written 18 months ago by gskbioinfo14350 • updated 18 months ago by Medhat7.6k
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error while executing MeDUSA package in redhat server
... Dear sir/mam, while executing MeDUSA package for medipseq analysis in redhat server it shows below error. but system is installed with perl v5.10.1 perl medusa.pl Can't locate Config/Simple.pm in @INC (@INC contains: /usr/local/lib64/perl5 /usr/local/share/perl5 /usr/lib64/perl5/vendor_perl /usr/s ...
medusa written 19 months ago by gskbioinfo14350
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Need Clarity/ Suggestions on Medip Seq Data analysis
... Dear sir/mam, i Have few queries related to MeDip Seq Data analysis. I have illumina MedipSeq data(Treatment sample R1,R2 and Normal Control data R1,R2). for which i have done initially mapping with bowtie2 and then used MACS for get peaks with scores then based on scores want to identify DMRs. so ...
medseq written 19 months ago by gskbioinfo14350

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