User: 21afiq

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21afiq0
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Posts by 21afiq

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De novo transcriptome assembly produce too many transcripts
... Hi, I just finished my transcriptome assembly using Trinity. However, the transcripts produced by trinity is too many (~300k transcripts) which is not normal for my sample. I believe most of these transcripts are redundant. How can I remove these redundant transcript? 1) I already tried cdhit est. ...
assembly transcriptomics rna-seq trinity written 4 weeks ago by 21afiq0 • updated 28 days ago by Corentin250
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Amplicon sequencing taxonomy assignment
... Hi, I am currently stuck with taxonomy annotation in amplicon sequencing data analysis. Is there any amplicon sequencing data reference database for non ribosomal genes such as cytochrome b genes. Common database such as Silva does not cover my targeted genes (cytochrome b). Or is there any metho ...
alignment dna metabarcoding amplicon sequencing written 10 months ago by 21afiq0 • updated 10 months ago by h.mon23k
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Genes in draft genome of bacteria
... Hi all, I am new to bioinformatic Currently, i have draft genome of my isolated bacteria. My question is : 1) how do i find which gene is related with quorum sensing? 2) what program can i used for screening if there is plasmid presence in my draft genome? 3) What kind of useful information can we g ...
gene next-gen sequence draft genome written 2.1 years ago by 21afiq0
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Predicting bacteria pathway based on whole genome sequence
... Hi, I already obtain a whole genome sequence of my bacteria (already done the annotation and assembly). Is there any way for me to know what type of pathway that presence in my bacteria based on my whole genome sequence? I am new in bioinformatic field. Thanks ...
pathway genome annotation written 2.2 years ago by 21afiq0 • updated 2.2 years ago by dago2.5k

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