User: Buffo

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Buffo1.4k
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Posts by Buffo

<prev • 278 results • page 1 of 28 • next >
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Answer: A: How to get the pathway-protein relationship?
... You also may try [webgestalt][1] that performs an Gene Set Enrichment Analysis (GSEA), and Network Topology-based Analysis (NTA). [1]: http://www.webgestalt.org/ ...
written 4 hours ago by Buffo1.4k
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Comment: C: From StringTie to DESeq2
... read this [strintie][1]`s tutorial to know how exactly run prepDE.py [1]: http://ccb.jhu.edu/software/stringtie/index.shtml?t=manual ...
written 7 hours ago by Buffo1.4k
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Comment: C: Phylogeny Heatmap with Python
... What do you expect to visualize in a heatmap from a multiple sequence alignment? ...
written 7 hours ago by Buffo1.4k
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Comment: C: MiRdeep2 for paired-end RNA-seq?
... In addition to h.mon`s answer it is very unlikely to found mature miRNAs from paired-end reads, the best thing that can happen is found long precursors. ...
written 11 hours ago by Buffo1.4k
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Comment: C: From StringTie to DESeq2
... Delete the first colum, the list must specify just the route to each gtf ...
written 11 hours ago by Buffo1.4k
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Comment: C: high q value of RNA-seq(By Hisat2-Stringtie-Ballgown)
... How many replicates do you have? I think ballgown is recommended for more than 5 replicates, why not try deseq2? ...
written 2 days ago by Buffo1.4k
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Answer: A: Human genome annotation
... You can use [stringtie][1] to annotate new mRNAs from RNAseq, but in agreement to h.mon you are trying to use drosophila to anotate human? that may be the cause of > illegal target for annotation [1]: http://ccb.jhu.edu/software/stringtie/index.shtml?t=manual ...
written 3 days ago by Buffo1.4k
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Comment: C: How to find a number of TE in a set of genomes?
... what you mean by "IS"? Before to perform any bioinformatic analysis I would recommend you answer these questions? > what am I looking for? > It is possible to get by in silico analysis? > Am I able to perform these in silico analysis? or Do I need professional help? ...
written 3 days ago by Buffo1.4k
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Comment: C: Genome Guided Transcriptome assembly
... By doing both you will learn the differences. ...
written 6 days ago by Buffo1.4k
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Answer: A: Genome Guided Transcriptome assembly
... I think it would depends on the genome completness level and the genome annotation, if it is fine, I recommend you [stringtie][1]. For de novo assemblies I would recommend [rnaSpades][2]. [1]: http://ccb.jhu.edu/software/stringtie/index.shtml?t=manual [2]: http://cab.spbu.ru/software/rnaspades ...
written 6 days ago by Buffo1.4k

Latest awards to Buffo

Appreciated 6 days ago, created a post with more than 5 votes. For A: Which is better: webgestalt vs david?
Scholar 6 days ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Appreciated 6 days ago, created a post with more than 5 votes. For A: Which is better: webgestalt vs david?
Scholar 6 days ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Popular Question 3 months ago, created a question with more than 1,000 views. For Pipeline for genome annotation?
Commentator 3 months ago, created a comment with at least 3 up-votes. For A: GO analysis of Soybean
Popular Question 4 months ago, created a question with more than 1,000 views. For Pipeline for genome annotation?
Commentator 5 months ago, created a comment with at least 3 up-votes. For A: GO analysis of Soybean
Popular Question 5 months ago, created a question with more than 1,000 views. For Pipeline for genome annotation?
Popular Question 6 months ago, created a question with more than 1,000 views. For Pipeline for genome annotation?
Popular Question 7 months ago, created a question with more than 1,000 views. For Pipeline for genome annotation?
Popular Question 7 months ago, created a question with more than 1,000 views. For piRNA target-interaction database?
Popular Question 7 months ago, created a question with more than 1,000 views. For piRNA target-interaction database?
Popular Question 9 months ago, created a question with more than 1,000 views. For piRNA target-interaction database?
Guru 11 months ago, received more than 100 upvotes.
Scholar 12 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: How to convert GTF to gff file for read count using HTSeq
Scholar 12 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Popular Question 15 months ago, created a question with more than 1,000 views. For Genomic assembly with spades
Supporter 19 months ago, voted at least 25 times.
Scholar 23 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?

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