User: Buffo
Buffo • 1.4k
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Posts by Buffo
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... 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
Buffo • 1.4k
1
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0
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79
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0
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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
Buffo • 1.4k
0
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47
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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
Buffo • 1.4k
0
votes
1
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67
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1
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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
Buffo • 1.4k
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79
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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
Buffo • 1.4k
0
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46
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... 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
Buffo • 1.4k
0
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1
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86
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1
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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
Buffo • 1.4k
0
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73
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... 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
Buffo • 1.4k
0
votes
1
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93
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1
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... By doing both you will learn the differences. ...
written 6 days ago by
Buffo • 1.4k
0
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1
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93
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... 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
Buffo • 1.4k
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?
Popular Question
4 months ago,
created a question with more than 1,000 views.
For Pipeline for genome annotation?
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
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19 months ago,
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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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