User: subodh

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subodh0
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Posts by subodh

<prev • 11 results • page 1 of 2 • next >
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Comment: C: Fungal Metagenome Query
... Sorry for that. Actually I am badly stuck with the problem so posted in both communities to get the solution faster from the experienced persons. Anyways, thanks for the information. ...
written 18 months ago by subodh0
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Fungal Metagenome Query
... Hello all.. I am using UNITE database for soil fungal metagenome analysis and I have few queries. 1. What is the Species Hypotheses (SH) threshold (0.5 to 3.0%) used in UNITE and if we have to change the threshold how can we change it ? 2. Is there any change in annotation if we change the thresho ...
sequence written 18 months ago by subodh0
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Metagenome Assembly using Meta-Velvet
... Hello Everyone, I am using Meta-Velvet for the Microbiome Assembly. While going through the manual I have found three parameters which are mentioned below -report_subgraph, -min_peak_cov (minimum peak coverage) and -max_peak_cov (maximum peak coverage) Can anyone please explain me what the abo ...
assembly written 2.8 years ago by subodh0
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Comment: C: Query Regarding 454 paired end Metagenomic Data
... Hello Sej, Thank you so much for your reply. ...
written 3.6 years ago by subodh0
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Query Regarding 454 paired end Metagenomic Data
... Hello, I have 454 paired end sequencing data for Metagenomics. The hyper variable (V4-V6) regions of the 16S rRNA genes was amplified from the total DNA extracted from  each  samples using bacterial primer pair 515F and 1061R.   560bp (V4-V6) + an adapter + barcode sequence = ~598bp  I have to do ...
454 sequencing written 3.6 years ago by subodh0 • updated 3.6 years ago by marina.v.yurieva470
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Comment: C: Error while running Tophat 2.0.11
... RAM is 8 GB ...
written 4.5 years ago by subodh0
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Answer: A: Error while running Tophat 2.0.11
... Hi jon.brate, Thank you for your reply. But I am running through external hard disk. No ... I haven't run tophat2 previously... This is the first time I am running. subset of reads ??? I haven't got that. ...
written 4.5 years ago by subodh0
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Comment: C: Error while running Tophat 2.0.11
... Hi jon.brate, Thank you for your reply. But I am running through external hard disk. No ... I haven't run tophat2 previously... This is the first time I am running. subset of reads ??? I haven't got that. ...
written 4.5 years ago by subodh0
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Error while running Tophat 2.0.11
... Hi everyone, I have a problem in running tophat 2.0.11 with a 50 bp paired end illumina RNA reads. I have used following command: ./tophat2 --read-gap-length 2 -r 50 --mate-std-dev 20 -o /home/sandor/Desktop/HD/NGS_analysis/tophat-2.0.11.Linux_x86_64/tophat_out -m 0 -i 70 -I 500000 --max-insertio ...
rna-seq written 4.5 years ago by subodh0 • updated 5 weeks ago by Biostar ♦♦ 20
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CASAVA-1.8.2 Installation Error
... Hi everyone, I'm trying to install illumina's software CASAVA-1.8.2, but there are some problems that I can't resolve. Hope someone can help me. I am installing CASAVA-1.8.2 and I followed commands given in the casava user guide. Everything went good except for last command which is: sudo make in ...
software error written 4.5 years ago by subodh0

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Popular Question 2.8 years ago, created a question with more than 1,000 views. For Error while running Tophat 2.0.11

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