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26 results • Page
1 of 1
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Views
Votes
Replies
0
votes
0
replies
18
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
1 hour ago by
Spring
• 0
0
votes
1
reply
22
views
Is it necessary to do genotype quality filteration after snp calling with GATK
snp
filteration
genotype
quality
GATK
updated 50 minutes ago by
Pierre Lindenbaum
161k • written 2 hours ago by
IdaHao0921
• 0
0
votes
0
replies
44
views
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
limma
4 hours ago by
Holly
• 0
0
votes
0
replies
41
views
Overlapping Ranges within Granges object
Genomicranges
IRanges
GRanges
6 hours ago by
ntsopoul
▴ 60
0
votes
0
replies
45
views
Biomart issue, why so few 3'utrs?
utr
biomart
8 hours ago by
RNAseqer
▴ 270
0
votes
1
reply
96
views
How to process Bulk WES data?
WES
WGS
updated 9 hours ago by
GenoMax
142k • written 10 hours ago by
wyuan37
• 0
0
votes
1
reply
98
views
Can diamond prepdb be used to make a taxonomically aware database?
blast
diamond
taxonomy
updated 8 hours ago by
GenoMax
142k • written 11 hours ago by
cedric.blais
• 0
0
votes
1
reply
87
views
Empty .best and .sing2 Files After Running Demuxlet
Biosciences
Demuxlet
updated 10 hours ago by
Ram
43k • written 12 hours ago by
eking28
• 0
0
votes
0
replies
59
views
reference-free assembly error assessment tools
assembly
14 hours ago by
lagartija
▴ 160
1
vote
0
replies
62
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
15 hours ago by
J.
▴ 10
0
votes
3
replies
144
views
Galaxy StringTie error
stringtie
galaxy
updated 8 hours ago by
Mathew
▴ 130 • written 16 hours ago by
trkfs
• 0
0
votes
0
replies
63
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
18 hours ago by
atariw
▴ 10
1
vote
1
reply
106
views
Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene prediction.
augustus
annotation
assembly
genome
updated 18 hours ago by
Juke34
8.6k • written 19 hours ago by
Vijith
▴ 30
0
votes
1
reply
111
views
consensus sequence calling
consensus
updated 15 hours ago by
bk11
★ 2.4k • written 19 hours ago by
Ghada
• 0
0
votes
0
replies
61
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
20 hours ago by
JACKY
▴ 140
0
votes
0
replies
73
views
Reference panel of normals for ensembl named refgenome
Mutect2
21 hours ago by
gernophil
▴ 80
1
vote
0
replies
71
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
22 hours ago by
tomas4482
▴ 400
3
votes
2
replies
143
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 22 hours ago by
ATpoint
82k • written 23 hours ago by
jennyp0706
• 0
1
vote
2
replies
311
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 16 hours ago by
Ram
43k • written 1 day ago by
t.fortunato.asquini
• 0
0
votes
2
replies
186
views
Output file of samtools flagstat empty
samtools-flagstat
updated 22 hours ago by
colindaven
6.4k • written 1 day ago by
ramendra.sarma
• 0
0
votes
5
replies
294
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
18 hours ago by
SilhouetteQ
• 0
4
votes
6
replies
396
views
RNA seq analysis
DESeq
RNA-seq
updated 18 hours ago by
Matthias Zepper
4.6k • written 5 days ago by
prifa
▴ 10
3
votes
3
replies
248
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 10 hours ago by
Ram
43k • written 14 days ago by
Adyasha
• 0
0
votes
0
replies
110
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 10 hours ago by
Ram
43k • written 15 days ago by
atharvakarkare14
▴ 30
0
votes
0
replies
175
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
4 hours ago by
Emily
▴ 20
0
votes
4
replies
3.6k
views
SNPEff database building error
SNP
updated 9 hours ago by
Fungal genetics
• 0 • written 7.1 years ago by
ntyagi654
• 0
26 results • Page
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Recent Votes
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
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Comment: What does the 'E%' represent in BUSCO results?
Answer: What does the 'E%' represent in BUSCO results?
Answer: Combine Two Affymetrix Datasets With Same Platform
Comment: Kraken2 database
Comment: How does gene length effect the number of reads mapped
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Comment: BWA alignment
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That is not what the logs above tell, but good you solved it.
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see VQSR https://gatk.broadinstitute.org/hc/en-us/articles/360035531612-Variant-Quality-Score-Recalibration-VQSR and https://gatk.broadinst…
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Hi, I kind of did and kind of didn't: I stopped trying to use snakemake( I remember that it's a lot of hustle to install pickard, maybe you…
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Comment: What does the 'E%' represent in BUSCO results?
by
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8.5k
No worries! I found the commit with the maths too: https://gitlab.com/ezlab/busco/-/blame/master/src/busco/busco_tools/hmmer.py?page=2#L135…
Comment: What does the 'E%' represent in BUSCO results?
by
林明德
• 0
Thank you for your answer! It really helped me resolve a doubt!
Answer: What does the 'E%' represent in BUSCO results?
by
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8.5k
Ah your edit solved this. 50 BUSCOs contain internal stop codons, indicating they might be erroneous gene models, or the genes themselves a…
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Comment: What does the 'E%' represent in BUSCO results?
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8.5k
funny enough i tried the same thing (i've used BUSCO heaps times but never saw the E:! even the manual lists 'C:89.0%[S:85.8%,D:3.2%],F:6.9…
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According to ChatGPT: In BUSCO, the "E" category represents "End" or "Endof" gene fragments. These are orthologous groups for which the ge…
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GeneC
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Thank you for the link and details
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