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InteractionSet
•
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0
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3
replies
136
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet
BuildReport
10 days ago • updated 9 days ago
martin.grigorov
• 0
0
votes
2
replies
474
views
Converting a GInteractions object to a dataframe
InteractionSet
18 months ago
noag
• 0
0
votes
1
reply
453
views
Resources to learn about s4 object extension/inheritance, custom print methods, and new operations
S4
Rcpp
InteractionSet
IRanges
Rle
updated 2.6 years ago by
Aaron Lun
★ 28k • written 2.6 years ago by
lklei001
• 0
0
votes
1
reply
422
views
How to load counts from existing count matrices in diffHic package
diffHic
HiC
InteractionSet
updated 2.8 years ago by
Aaron Lun
★ 28k • written 2.8 years ago by
girardot
• 0
0
votes
2
replies
705
views
Visualizing 4c-seq as arc
genomicinteractions
gviz
interactionset
updated 4.2 years ago by
liz.ingsimmons
▴ 140 • written 4.2 years ago by
ferbecneu
• 0
2
votes
1
reply
897
views
Error to rename seqlevels in Granges interactions
interactionset
granges
updated 4.6 years ago by
Aaron Lun
★ 28k • written 4.6 years ago by
Vinicius Henrique da Silva
▴ 40
2
votes
1
reply
707
views
Inflating interactionSets into a contact matrix
diffhic
hic
interactionset
contactmatrix
inflate
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
hwick1
▴ 20
1
vote
5
replies
960
views
diffHiC differential HiC analysis starting from Ginteractions object
diffhic
interactionset
6.5 years ago
Vivek.b
▴ 100
2
votes
1
reply
774
views
cluster (only one end overlapping) breakpoints using InteractionSet
InteractionSet
structural variants
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
tangming2005
▴ 190
9 results • Page
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Comment: mas5calls function doesn't work; mirna40cdf problem
by
James W. MacDonald
62k
Yes. Follow the recommendation in the link that was provided to you by Lori Shepherd.
Comment: mas5calls function doesn't work; mirna40cdf problem
by
Berna
• 0
Thank you for the information. I did not know that. Would you have a tip how I could proceed differently?
Comment: Correct use of Likelihood Ratio Test and LFC Shrinkage
by
ayabalbaa1990
• 0
Hi Michael, So I use this res_LRT <- results(dds_lrt) r2=lfcShrink(dds_lrt, coef=7, res=res_LRT) tu run lfcshrink with LRT, is that oko?…
Comment: Combat and dds Object
by
shaimaa
• 0
I used the combat-seq but the deseq complain as its not integer what should i do
Answer: Different summary() and results() values in DeSeq2
by
Basti
▴ 540
summary() tells you the number of genes with low counts, see independant filtering of results in the DESeq2 vignette : https://www.biocondu…
Votes
Answer: mas5calls function doesn't work; mirna40cdf problem
Issue with bumphunter and TxDb.Hsapiens.UCSC.hg38.knownGene that could be due to S4Vectors or an installation problem
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
Strand information in a GAlignmentsList object derived from strand-specific paired-end RNA-seq data
A: How to translate FASTA file of DNA sequence to protein sequence using Biostrings
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