User: rice.researcher
rice.researcher • 90
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Posts by rice.researcher
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... I wanted to plot GO enrichment results of multiple species (10) to compare the enriched terms. Can anyone suggest tool or package for my purpose? An example of the desired plot is below.
![enter image description here][1]
[1]: https://image.ibb.co/hZgpZp/GO_multiple.jpg ...
written 8 days ago by
rice.researcher • 90
• updated
7 days ago by
RamRS ♦ 17k
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... Thanks @Devon for the suggestion.! BTW, I' not sure how the 8mer+8mer case come? If you could give a search keyword for this kind of barcoding, it would be helpful for me to further look into to available documents. ...
written 3 months ago by
rice.researcher • 90
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... I generally analyze paired-end illumina platform geretaed fastq having 6mer barcode. For ex,
@K00171:40:H3KJTBBXX:8:1101:20518:2020 2:N:0:CGATGT
GCTGCTTCAATCCTTTCCTCTACTGTCATGTCACTTCGGGCTTTCCCCTCTTTGACATCAATAAGTTCAACTTCATAAACAAGGTCTGCCATCAATCGTTA
+
A,A,F ...
written 3 months ago by
rice.researcher • 90
• updated
3 months ago by
Devon Ryan ♦ 84k
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Answer:
A: microarray data analysis
... You can try Shiny app [BatchQC][1]. It can deal with multiple batches and eliminate batch effect.
[1]: https://bioconductor.org/packages/release/bioc/html/BatchQC.html ...
written 5 months ago by
rice.researcher • 90
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... Too late, but [this paper][1] describes what you are looking for.
[1]: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5697344/ ...
written 7 months ago by
rice.researcher • 90
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Comment:
C: Ballgown library load
... May be [this answer][1] will be helpful to solve the issue.
[1]: https://stackoverflow.com/questions/31717850/error-package-or-namespace-load-failed-for-ggplot2-and-for-data-table ...
written 9 months ago by
rice.researcher • 90
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Comment:
C: multiple sequence alignment
... [mauve][1] and [VISTA][2]can be used to align genomes and to analyze synthetic regions.
[1]: http://darlinglab.org/mauve/mauve.html
[2]: http://genome.lbl.gov/vista/index.shtml ...
written 10 months ago by
rice.researcher • 90
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... Ok I got it, thanks!! ...
written 10 months ago by
rice.researcher • 90
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... [ArrayExpress][1] has number of processed data and filtering option may show dataset you are looking for.
[1]: https://www.ebi.ac.uk/arrayexpress/browse.html ...
written 10 months ago by
rice.researcher • 90
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... Previously I also faced this problem and a [solution][1] given in this thread by Devon Ryan solved it.
[1]: https://www.biostars.org/p/129622/ ...
written 10 months ago by
rice.researcher • 90
Latest awards to rice.researcher
Scholar
12 months ago,
created an answer that has been accepted.
For A: How to plot Z-scores in R for gene expression data
Teacher
12 months ago,
created an answer with at least 3 up-votes.
For A: How to plot Z-scores in R for gene expression data
Popular Question
2.4 years ago,
created a question with more than 1,000 views.
For Plotting and Visualizing large number of genes into chromsome
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