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syntenet
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10
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2.0k
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Interprteting the phylogenomic profiles plot
syntenet
synteny
Network
written 17 months ago by
Alexandros
• 0
0
votes
2
replies
562
views
MIcrosynteny block information - Syntenet
syntenet
microsynteny
blocks
synteny
written 9 months ago by
Alexandros
• 0
0
votes
1
reply
280
views
question about data processing for syntenet
syntenet
updated 6 weeks ago by
Fabricio Almeida-Silva
▴ 40 • written 3 months ago by
Sujeevan
• 0
2
votes
8
replies
1.3k
views
Reading GFF file and pre-processing, run iinfer_syntenet(), input and output
syntenet
updated 3 months ago by
Sujeevan
• 0 • written 16 months ago by
lwanderson8c
• 0
0
votes
1
reply
240
views
Syntenet error in infer_syntenet() Error in blast_list[[1]] : subscript out of bounds
syntenet
updated 6 weeks ago by
Fabricio Almeida-Silva
▴ 40 • written 12 weeks ago by
Sujeevan
• 0
0
votes
4
replies
258
views
Error in classify_gene_pairs
syntenet
doubletrouble
6 weeks ago
hfyuan2016
• 0
0
votes
1
reply
603
views
Syntenet application to bacterial genome and file processing
syntenet
Bacteria
synteny
updated 4 months ago by
Fabricio Almeida-Silva
▴ 40 • written 6 months ago by
kluongni
• 0
0
votes
3
replies
559
views
Clustering coefficient of synteny network
Network
syntenet
Clustering
coefficient
9 months ago
Alexandros
• 0
8 results • Page
1 of 1
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Answer: Deseq2. decontXcounts not integers. Useful alternative?
by
Michael Love
41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks
by
ATpoint
★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123
by
Gordon Smyth
50k
Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Votes
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
Answer: Cross-species analysis - how to compute the mid parent value?
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