User: Sitara

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Sitara0
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Posts by Sitara

<prev • 12 results • page 1 of 2 • next >
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Comment: C: Metagenomics nanopore data
... Aligned to NCBI bacterial reference sequences ...
written 7 days ago by Sitara0
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Metagenomics nanopore data
... Hello all I have downloaded public nanopore metagenomic data. I have used minimap2 for the alignment of long nanopore reads. I am interested in calculating the abundance for each organism. Can someone suggest any tool to get the abundance from nanopore reads? Any help would be appreciated. Thanks ...
genome alignment next-gen sequencing written 7 days ago by Sitara0
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Comment: C: Maximum size limit for indexing genome with bowtie2 with large index option
... Thank you. Will look into it. ...
written 8 weeks ago by Sitara0
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Comment: C: Maximum size limit for indexing genome with bowtie2 with large index option
... It is a multiple genome fasta file ...
written 8 weeks ago by Sitara0
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Comment: C: Maximum size limit for indexing genome with bowtie2 with large index option
... I am running on a 256 gb RAM machine with 35 cores ...
written 8 weeks ago by Sitara0
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Maximum size limit for indexing genome with bowtie2 with large index option
... Hello all I have a fasta file with 100 GB of data and I am trying to create a bowtie2 index. It is showing the following error: Ran out of memory; automatically trying more memory-economical parameters. Using parameters --bmax 54 --dcv 4096 Any help would be appreciated. Thanks i ...
genome assembly alignment software error written 8 weeks ago by Sitara0 • updated 7 days ago by Biostar ♦♦ 20
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Comment: C: Selection of RNA-Seq appropriate tools for meta-analysis
... Thanks for your suggestion, will try to implement it. ...
written 4 months ago by Sitara0
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Selection of RNA-Seq appropriate tools for meta-analysis
... Hello all, I am running a meta-analysis with publicly available RNA-seq data, containing multiple samples which have approximately 5000 replicates each. I want to compare these samples and get the top genes which are up-regulated and down-regulated. Can someone suggest me Which combination of too ...
alignment rna-seq written 4 months ago by Sitara0 • updated 4 months ago by Devon Ryan86k
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Comment: C: RNA-Seq Cufflinks normalization methods
... This was clear enough for me to understand. Thanks a lot for the reply. ...
written 5 months ago by Sitara0
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Comment: C: RNA-Seq Cufflinks normalization methods
... Sorry. I am new to Biostar and I am learning things. Will use ADD COMMENT or ADD REPLY in the future. Could you please help me with the above query. Thank you. ...
written 5 months ago by Sitara0

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