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22 results • Page
1 of 1
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0
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0
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Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
just now by
VITALA
• 0
0
votes
1
reply
97
views
DESeq2 processing problems
deseq2
R
updated 51 minutes ago by
Ram
43k • written 7 hours ago by
jagdish7921
• 0
0
votes
1
reply
117
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
updated 10 hours ago by
Ram
43k • written 13 hours ago by
rianna.collins
• 0
0
votes
1
reply
99
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 4 hours ago by
i.sudbery
19k • written 15 hours ago by
Edmond
• 0
0
votes
0
replies
77
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
16 hours ago by
O.rka
▴ 710
0
votes
1
reply
230
views
after selecting specific GO terms to plot, cneplot is not showing any color for genes, GO terms and only showing lines without nodes.
cneplot
updated 10 hours ago by
Ram
43k • written 16 hours ago by
Dr Huma Naz
• 0
2
votes
2
replies
185
views
p-value in CIBERSORT
CIBERSORT
p-value
6 hours ago by
michelafrancesconi9
▴ 20
0
votes
4
replies
205
views
Telescope issue
Telescope
RNA-seq
37 minutes ago by
eleven11
• 0
0
votes
0
replies
82
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 18 hours ago by
Ram
43k • written 21 hours ago by
J
• 0
5
votes
6
replies
414
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 22 hours ago by
me
▴ 760 • written 2 days ago by
Mariana
▴ 40
0
votes
0
replies
89
views
Defined objects of type "S4" error in single cell analysis
Seurat
single-cell
DoubletFinder
single-nuclei
SeuratObject
23 hours ago by
sarphilsar
• 0
0
votes
1
reply
156
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 18 hours ago by
Ram
43k • written 23 hours ago by
Jonathan Yoou
▴ 60
1
vote
2
replies
197
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
3 hours ago by
Nafi
• 0
0
votes
3
replies
200
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 18 hours ago by
GenoMax
141k • written 23 hours ago by
jeffrey.maurer.informatics
• 0
0
votes
3
replies
221
views
KEGG Pathways
r
RNA-seq
updated 21 hours ago by
Ram
43k • written 1 day ago by
Sudip
• 0
1
vote
2
replies
177
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 23 hours ago by
Ram
43k • written 1 day ago by
Ravita
• 0
0
votes
4
replies
268
views
Post-imputation plot
michigan-imputation-server
quality-control
3 hours ago by
kl
▴ 10
3
votes
2
replies
330
views
Extract protein sequence
fasta
alignment
blast
20 hours ago by
anna
▴ 20
0
votes
2
replies
172
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
23 hours ago by
matteo.levorato
• 0
0
votes
8
replies
394
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 19 hours ago by
LauferVA
4.2k • written 2 days ago by
jinyu
▴ 10
1
vote
1
reply
156
views
Including plasmid in alignment
Bacteria
Transcriptomics
BOWTIE2
STAR
18 hours ago by
heelpPlease
• 0
1
vote
8
replies
424
views
Downsampling fastq file
downsample
fastq
22 hours ago by
marco.barr
▴ 80
22 results • Page
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Recent Votes
What Is The Difference Between Structural Variants (Svs) And Copy-Number Variants (Cnvs)?
What Is The Difference Between Structural Variants (Svs) And Copy-Number Variants (Cnvs)?
Comment: Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x
Answer: Discrepancy between Log2(x) and Log2(x+1) regarding Log2FC
Answer: Verify if all the components of a pathway are present in a genomes
Answer: p-value in CIBERSORT
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Recent Replies
Comment: Telescope issue
by
eleven11
• 0
Thank you! how would I correct that?
Comment: DESeq2 processing problems
by
Ram
43k
This is an open science community, not a place to write an email to Michael Love. Please address the entire community.
Comment: Post-imputation plot
by
kl
▴ 10
All of them are G/C and A/T variants Some seem mismatches based on AF and some seem to need flipping. I guess I am confused, as in the Mich…
Comment: Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x
by
Nafi
• 0
Thank you for the reply I have 16 gb of RAM then I can give a try then.
Comment: Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
by
i.sudbery
19k
Can you give more details of the data you are planning to use. What is the different studies, what are the comparisons you want to make.
Comment: p-value in CIBERSORT
by
michelafrancesconi9
▴ 20
Thank you so much!!
Comment: POSSUM not working due to incompatible pssm file
by
Ram
43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: after selecting specific GO terms to plot, cneplot is not showing any color for
by
Ram
43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: Telescope issue
by
GenoMax
141k
Looks like there is a tab missing between the sequence and the quality string.
Comment: Post-imputation plot
by
LChart
3.9k
I would pull out the variants with panel_freq ~ 1 - upload_freq and min(panel_freq, upload_freq) < 0.4. I would check if these are G/C or A…
Comment: Telescope issue
by
eleven11
• 0
Hello the output is A01940:33:GW2208142379th:3:1317:24126:3505 355 chr14 16651125 0 150M = 17034150 122900 GCTAACAGAGTTGAACCTTTCTATTG…
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
GenoMax
141k
Looking at the [code here][1] `bundle_uuid` seems to be related to the submissions to HCA. Samples that ran on multiple lanes seem to have …
Comment: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
this is very true and increasingly true as time goes forward. thanks for supplementing this post with your own :-)
Comment: What does 'bundle_uuid' refer to in this metadata sheet?
by
jeffrey.maurer.informatics
• 0
Thank you, but I've already checked out that site to see if I was missing anything and I don't see any answers to my questions there.
Answer: p-value in CIBERSORT
by
Aspire
▴ 320
You have not explicitly specified the number of permutations (which are used to calculate the p-value). The default value of the permutatio…
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