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13,531 results • Page
4 of 271
Sort: Rank
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Views
Votes
Replies
0
votes
0
replies
98
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
6 days ago by
Vijith
▴ 30
10
votes
14
replies
640
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 1 day ago by
GenoMax
142k • written 7 days ago by
nicole.kavanagh
• 0
0
votes
1
reply
284
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 6 days ago by
Scooter
▴ 280 • written 13 days ago by
avocado123
• 0
0
votes
0
replies
99
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
6 days ago by
James
▴ 10
0
votes
1
reply
589
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 6 days ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
1
vote
3
replies
242
views
Odd alignment question/finding
Alignment
updated 5 days ago by
barslmn
★ 2.1k • written 6 days ago by
poordumbsillyidiot
• 0
0
votes
1
reply
209
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 6 days ago by
GenoMax
142k • written 7 days ago by
mgranada3
▴ 30
0
votes
0
replies
102
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
7 days ago by
meck
• 0
0
votes
0
replies
126
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 7 days ago by
Ram
43k • written 7 days ago by
Oscar
▴ 10
0
votes
7
replies
565
views
Post-imputation plot
michigan-imputation-server
quality-control
updated 5 days ago by
LChart
3.9k • written 9 days ago by
kl
▴ 10
0
votes
1
reply
223
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 7 days ago by
Adam
▴ 30 • written 8 days ago by
J
• 0
1
vote
3
replies
316
views
DESeq2 processing problems
deseq2
R
updated 7 days ago by
ATpoint
82k • written 7 days ago by
jagdish7921
• 0
0
votes
1
reply
783
views
cnetplot category names are too long
clusterprofiler
RNA-Seq
enrichplot
cnetplot
updated 6 days ago by
Ram
43k • written 2.7 years ago by
carov
• 0
0
votes
1
reply
154
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 7 days ago by
Ram
43k • written 7 days ago by
ernestine.kubi
• 0
0
votes
0
replies
107
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
7 days ago by
VITALA
• 0
1
vote
2
replies
258
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
6 days ago by
rianna.collins
• 0
0
votes
1
reply
193
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 7 days ago by
i.sudbery
19k • written 7 days ago by
Edmond
• 0
0
votes
0
replies
150
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
7 days ago by
O.rka
▴ 720
0
votes
1
reply
685
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 7 days ago by
Ram
43k • written 7 days ago by
Dr Huma Naz
• 0
2
votes
2
replies
284
views
p-value in CIBERSORT
CIBERSORT
p-value
7 days ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
383
views
Telescope issue
Telescope
RNA-seq
updated 7 days ago by
GenoMax
142k • written 8 days ago by
eleven11
• 0
5
votes
6
replies
540
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 8 days ago by
me
▴ 760 • written 9 days ago by
Mariana
▴ 40
1
vote
1
reply
239
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 8 days ago by
Ram
43k • written 8 days ago by
Jonathan Yoou
▴ 60
1
vote
2
replies
299
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
7 days ago by
Nafi
• 0
1
vote
3
replies
289
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 8 days ago by
GenoMax
142k • written 8 days ago by
jeffrey.maurer.informatics
• 0
1
vote
3
replies
287
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
2 days ago by
Dora
▴ 10
0
votes
0
replies
169
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 8 days ago by
Ram
43k • written 8 days ago by
Chakri
• 0
0
votes
2
replies
229
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
1 day ago by
Ahiad Chen Zion
• 0
1
vote
5
replies
339
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
5 days ago by
Riccardo
▴ 10
0
votes
0
replies
135
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 8 days ago by
Ram
43k • written 8 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
129
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 8 days ago by
Ram
43k • written 8 days ago by
Alexandros
• 0
0
votes
1
reply
176
views
unable to get feature count results
featureCounts
updated 8 days ago by
Ram
43k • written 8 days ago by
Ravita
• 0
0
votes
3
replies
296
views
KEGG Pathways
r
RNA-seq
updated 8 days ago by
Ram
43k • written 8 days ago by
Sudip
• 0
4
votes
6
replies
3.9k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 8 days ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
136
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
8 days ago by
Bine
▴ 60
0
votes
1
reply
296
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
8 days ago by
David Langenberger
11k
0
votes
1
reply
196
views
Deseq2
Deseq2
updated 8 days ago by
Jack Tierney
▴ 360 • written 8 days ago by
Sudip
• 0
1
vote
1
reply
243
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 8 days ago by
Michael
54k • written 9 days ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
290
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 8 days ago by
Lluís R.
★ 1.2k • written 8 days ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
205
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 8 days ago by
ATpoint
82k • written 8 days ago by
Sudip
• 0
1
vote
2
replies
229
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 8 days ago by
Ram
43k • written 8 days ago by
Ravita
• 0
3
votes
3
replies
226
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
1 day ago by
Adyasha
• 0
0
votes
0
replies
116
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
8 days ago by
fanglujing
▴ 60
0
votes
0
replies
136
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
8 days ago by
Jacob
• 0
0
votes
3
replies
750
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 8 days ago by
weidonglu
• 0 • written 21 months ago by
JZX
• 0
0
votes
4
replies
286
views
Perfom a Gene Ontology Analysis from GO terms txt file
RNA-Seq
GO
updated 8 days ago by
Ram
43k • written 9 days ago by
Hamtaro
▴ 50
0
votes
1
reply
186
views
Differential Accessibility
DiffBind
updated 9 days ago by
Ram
43k • written 9 days ago by
Shloka
• 0
0
votes
3
replies
298
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 8 days ago by
GenoMax
142k • written 9 days ago by
kim
• 0
3
votes
2
replies
392
views
Extract protein sequence
fasta
alignment
blast
8 days ago by
anna
▴ 20
3
votes
3
replies
332
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 9 days ago by
noodle
▴ 580 • written 9 days ago by
WUSCHEL
▴ 760
13,531 results • Page
4 of 271
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Verify if all the components of a pathway are present in a genomes
removeBatchEffect explained using base R linear models
How to get number of characters (nucleotides) in fasta file
Answer: How can I analyze normalized expression data?
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Answer: Decoding MM and ML tags in .SAM file
C: salmon quantification vs. star mapping
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Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
• 0
I probably got some of the vocabulary wrong. I thought that "Dom HOR2932 HOR3036 HOR3726 KWSBambina Rec S42IL_124" were representing my ge…
Comment: featureCounts output assigned value higher than and HISAT2 mapping.
by
Ram
43k
It's featureCount**s**, not featureCount. I've edited your post and fixed all mentions of featureCounts.
Comment: kinannote software installation problems
by
Emanoelle
• 0
Hey, I know it's been 5 years but I have the same issue. When I run the test the software is unable to perform and always deliver the follo…
Comment: STAR aligner error
by
Ram
43k
If they can't help you, we probably can't do much either. But we can optimize your STAR command. BAM SortedByCoordinate is the worst settin…
Answer: Obtaining Infinium Methylation450K manifest for hg38
by
marco.barr
▴ 90
Hi, you can check it from github here: [https://zwdzwd.github.io/InfiniumAnnotation][1]. I don't know if this is what you are looking fo…
Comment: RNA seq analysis
by
ATpoint
82k
It makes absolutely no sense to conduct such an analysis. I strongly discourage you to even start with it. Results will be utterly nonsense…
Comment: Differentail gene expression results
by
swbarnes2
14k
Cross-posted: https://support.bioconductor.org/p/9158194/
Answer: Seurat V5 integration
by
Bastien Hervé
5.3k
It will depend on your context and question. I guess you will want to compare gene expression between your conditions within cell types …
Answer: Error in plotting PCA plot in seurat
by
Adam
▴ 30
You get this error when you try to compare two data frames that have different dimensions. Try using the traceback() command to figure out …
Comment: Applying the metacell2 algorithm using python
by
Wayne
★ 2.0k
Sorry, this was supposed to be a comment appended to the chain above. I didn't mean to post as an answer.
Comment: Exploring Diet Effects in Single-Cell RNA Sequencing
by
Adam
▴ 30
> when I looked at the expression of aging marker genes, I noticed that diets sequenced in the same batch appeared more similar. How simil…
Answer: How to compare compare two Sam files to check mapping
by
DavidStreid
▴ 90
Curious if others have also benefited from Picard's [CompareSAMs][1] tool. Seems to do exactly what Madhu has requested. If the headers …
Answer: How/where can I get fungal mitogenome data for analysis?
by
alex.zaccaron
▴ 410
The best repository is probably NCBI Organelle Resources. You can search by taxonomy and download their mt genomes. Check it out for fungi…
Answer: How/where can I get fungal mitogenome data for analysis?
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142k
Good place to start looking: https://www.ncbi.nlm.nih.gov/genome/organelle/ Mitochondrial genomes may also be included in full genomes so …
Comment: Correlating Bulk Differential Expression with quantitative
by
Nicholas
• 0
Thank you! I will give it a shot
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