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21 results • Page
1 of 1
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Votes
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0
votes
0
replies
1
view
Is there a real ground truth for CNV data?
CNV
just now by
jennyp0706
• 0
0
votes
1
reply
22
views
sci-RNA-seq
sci-RNA-seq
clusters
combinatorial
single
updated 19 minutes ago by
ATpoint
82k • written 37 minutes ago by
kilcdincer
▴ 10
0
votes
0
replies
12
views
Retrieving ceRNA data from the starBase or ENCORI Web API
ceRNA
ENCORI
WebAPI
microRNA
starBase
updated 44 minutes ago by
GenoMax
142k • written 58 minutes ago by
Bhavya
• 0
0
votes
3
replies
74
views
How to access GWAVA software of data
GWAVA
updated 1 hour ago by
GenoMax
142k • written 4 hours ago by
nonaddldy
▴ 10
0
votes
0
replies
46
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
7 hours ago by
Spring
• 0
0
votes
2
replies
104
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
4 hours ago by
IdaHao0921
• 0
0
votes
3
replies
273
views
Snakemake wrapper issue
fastqc
snakemake
updated 9 hours ago by
Wei-Chen Pan
• 0 • written 9 weeks ago by
Matvii Mykhailichenko
• 0
0
votes
0
replies
60
views
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
limma
10 hours ago by
Holly
• 0
0
votes
1
reply
111
views
How to process Bulk WES data?
WES
WGS
updated 15 hours ago by
GenoMax
142k • written 16 hours ago by
wyuan37
• 0
0
votes
1
reply
111
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 14 hours ago by
GenoMax
142k • written 17 hours ago by
cedric.blais
• 0
0
votes
1
reply
96
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 16 hours ago by
Ram
43k • written 18 hours ago by
eking28
• 0
0
votes
0
replies
68
views
reference-free assembly error assessment tools
assembly
20 hours ago by
lagartija
▴ 160
1
vote
0
replies
71
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
21 hours ago by
J.
▴ 10
0
votes
4
replies
180
views
Galaxy StringTie error
stringtie
galaxy
3 hours ago by
trkfs
• 0
1
vote
3
replies
193
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
5 hours ago by
Vijith
▴ 30
0
votes
1
reply
120
views
consensus sequence calling
consensus
updated 22 hours ago by
bk11
★ 2.4k • written 1 day ago by
Ghada
• 0
1
vote
2
replies
333
views
How to remove multiple batch effects from RNA-seq data before limma differential gene expression analysis?
ComBat-seq
limma
RNA-seq
removeBatchEffect
batch-effect
updated 22 hours ago by
Ram
43k • written 1 day ago by
t.fortunato.asquini
• 0
3
votes
3
replies
252
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 16 hours ago by
Ram
43k • written 14 days ago by
Adyasha
• 0
0
votes
0
replies
111
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 16 hours ago by
Ram
43k • written 15 days ago by
atharvakarkare14
▴ 30
0
votes
0
replies
176
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
10 hours ago by
Emily
▴ 20
0
votes
4
replies
3.6k
views
SNPEff database building error
SNP
updated 15 hours ago by
Fungal genetics
• 0 • written 7.1 years ago by
ntyagi654
• 0
21 results • Page
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Recent Votes
A: GC bias correction for Chip-SEQ
Comment: Help with IGV abbreviation
A: How to get read counts on transcript level using featurecounts?
Answer: Vcf file sorting
Answer: How to interpret infinite odds ratio?
Answer: Is there any way to modify this pie chart ?
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
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Recent Replies
Comment: Biomart issue, why so few 3'utrs?
by
GenoMax
142k
AFAIK "MANE" project is only for human protein-coding genes. One potential explanation. Out of the 2000 ID's only 125 may be MANE. https:…
Answer: Biomart issue, why so few 3'utrs?
by
i.sudbery
19k
The MANE-select transcripts are pairs of identically annotated transcripts in ReqSeq and Ensembl. The 3' UTR is the region where otherwise …
Comment: sci-RNA-seq
by
ATpoint
82k
Please understand that this impossibly can be answered without any code or plots, or details in general. "Hey my car does not start, it mak…
Comment: Biomart issue, why so few 3'utrs?
by
i.sudbery
19k
Which species is this?
Comment: How to access GWAVA software of data
by
GenoMax
142k
Please email the author (grsr at ebi.ac.uk) and let them know that the link above is not available.
Comment: CNVKIT - unable to produce scatter and diagram pdfs
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Answer: Overlapping Ranges within Granges object
by
ATpoint
82k
There is no one-hit function in GenomicRanges, but you can stick something together using a combination of `findOverlaps` to first find ove…
Comment: Galaxy StringTie error
by
trkfs
• 0
Hi, I did not encounter any " \ - " characters in the fastq input files, and it doesn't seem to be present in any other files either. Thank…
Comment: How to interpret infinite odds ratio?
by
Lukas
• 0
Thanks you for your answer. But according that links interpretation of inf odds ratio is up to hypothesis of the researcher.So my solution …
Comment: How to access GWAVA software of data
by
nonaddldy
▴ 10
Not found in https://ftp.sanger.ac.uk/resources/software/gwava/ ![][1] [1]: /media/images/f69695ec-e047-44f6-95ce-cd4edf1c
Comment: How to access GWAVA software of data
by
nonaddldy
▴ 10
https://www.sanger.ac.uk/tool/gwava/
Comment: Is it necessary to do genotype quality filteration after snp calling with GATK
by
IdaHao0921
• 0
The species I study is not a model species, VQSR can not be applied here. I already used gatk hard-filtering. I mean, after hard-filtering,…
Answer: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
If you're not tied to Granges, you could use `bedmap --fraction-both 0.1` to require at least 10% overlap between reference and map regions…
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