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191 results • Page
3 of 4
Sort: Votes
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Views
Votes
Replies
0
votes
0
replies
26
views
Enhanced Volcano-Cut off
enhanced
foldchange
volcano
2 hours ago by
odi
▴ 10
0
votes
1
reply
44
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 1 hour ago by
Pierre Lindenbaum
161k • written 2 hours ago by
Matthew
• 0
0
votes
1
reply
36
views
Help with Biopython for Beginner
Python
FASTA
Biopython
ORF
Beginner
updated 1 hour ago by
Pierre Lindenbaum
161k • written 3 hours ago by
cput
• 0
0
votes
1
reply
590
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 6 days ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
0
votes
1
reply
26
views
Forum:
Contig assembly task, errors
dna
contig
assembly
genetics
bioinformatics
updated 1 hour ago by
Philipp Bayer
8.4k • written 1 hour ago by
rackbersingh
• 0
0
votes
0
replies
100
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
6 days ago by
James
▴ 10
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
98
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
6 days ago by
Vijith
▴ 30
0
votes
0
replies
101
views
Use of annotation of integrated Seurat object in single sample
Seurat
6 days ago by
Bine
▴ 60
0
votes
1
reply
229
views
Subsetting and merging back Seurat Object brings different results
Seurat
6 days ago by
Bine
▴ 60
0
votes
0
replies
108
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding
Programming
R
updated 6 days ago by
Ram
43k • written 6 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
151
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
NGS
Genomics
Post-doc
R-loops
updated 6 days ago by
Ram
43k • written 6 days ago by
4r-rtg
• 0
0
votes
1
reply
784
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
517
views
Loss of 'var' using concatenation of AnnData objects
Scanpy
AnnData
updated 6 days ago by
Hugo
• 0 • written 5 months ago by
Rachel
• 0
0
votes
2
replies
200
views
Base Quality Score Recalibration with different reference genome
SNPs
GATK
BQSR
RNA-seq
6 days ago by
dtnondorf
• 0
0
votes
1
reply
152
views
Provean help
variant
Provean
updated 6 days ago by
Mensur Dlakic
★ 27k • written 6 days ago by
Arun Sai Kumar
• 0
0
votes
1
reply
186
views
VG : No reference-sense paths available in the graph; falling back to generic paths.
vg
updated 6 days ago by
anovak
▴ 120 • written 6 days ago by
Hang
• 0
0
votes
7
replies
569
views
Post-imputation plot
michigan-imputation-server
quality-control
updated 6 days ago by
LChart
3.9k • written 9 days ago by
kl
▴ 10
0
votes
2
replies
732
views
homer not configured properly
Homer
makeTagDirectory
updated 5 days ago by
clairechung112
• 0 • written 23 months ago by
amahdi779
• 0
0
votes
1
reply
547
views
HOMER on AWS
HOMER
updated 5 days ago by
clairechung112
• 0 • written 2.2 years ago by
Bogdan
★ 1.4k
0
votes
0
replies
146
views
SIngle cell analysis
Seurat
scRNA-seq
Harmony
DoubletFinder
Merge
5 days ago by
Jeyong
• 0
0
votes
0
replies
138
views
News:
Cellosaurus release 49 is available
cell
biocuration
line
database
news
knowledgebase
5 days ago by
Amos Bairoch
▴ 120
0
votes
5
replies
326
views
RNAseq one control two conditions, shared and exclusive genes
conditions
RNAseq
multiple
Rstudio
updated 5 days ago by
Mohamed Abderrahmane
▴ 20 • written 9 days ago by
matteo.levorato
• 0
0
votes
5
replies
366
views
6 follow
What purposes can TPM values be used for?
RNA-seq
TPM
Normalization
DESeq2
updated 5 days ago by
b.contreras.moreira
▴ 180 • written 6 days ago by
JH
• 0
0
votes
0
replies
147
views
Generating illumina interops SAV like plots for multiqc reports on HPC
visualization
illumina
ngs
sequencing
5 days ago by
rustykb
▴ 20
0
votes
0
replies
321
views
Re-Import modified clusterProfiler's GSEA result from .csv for graphical output-generation (i.e. cnetplot, heatplot)
enrichplot
graphical_output
GSEA
clusterProfiler
5 days ago by
NorbertK
• 0
0
votes
0
replies
131
views
Modify plot R mtDNA indel
plot
mtDNA
R
5 days ago by
marco.barr
▴ 90
0
votes
6
replies
311
views
How does gene length effect the number of reads mapped
RNA-seq
CPM
sequencing
updated 5 days ago by
dsull
★ 6.0k • written 6 days ago by
Chen
• 0
0
votes
0
replies
130
views
IGV interpretation for ATM gene for chromosome 11 for a deceased partient suspected of having melanoma
genetic
Variant
predisposition
5 days ago by
mikemakaveli1
• 0
0
votes
0
replies
138
views
vcf procesing for ML antigen prediction
formats
vcf
fastaq
HLA_imputation
HLA_typing
5 days ago by
Javier
• 0
0
votes
6
replies
425
views
Differential Expression Analysis using DESeq2 in R
deseq2
R
updated 5 days ago by
swbarnes2
14k • written 5 days ago by
Erina
• 0
0
votes
0
replies
134
views
Empty table plot using plotGseaTable()
FGSEA
5 days ago by
Chris
▴ 280
0
votes
5
replies
350
views
Easy way to find out which allele is minor allele from bed file?
plink
updated 5 days ago by
chrchang523
10k • written 5 days ago by
curious
▴ 750
0
votes
1
reply
201
views
fastq screen aligner no specified.
BWA
Bowtie2
FastqScreen
updated 4 days ago by
GenoMax
142k • written 5 days ago by
Ximena
• 0
0
votes
2
replies
248
views
Downloading older version of a tool
Alignment
tools
4 days ago by
Ruqaiya
• 0
0
votes
1
reply
196
views
filtering before dada2
bbduk
qiime2
dada2
metagenomic
updated 4 days ago by
Ram
43k • written 5 days ago by
Valentina
• 0
0
votes
1
reply
233
views
Extracting mutation status from MAF files - TCGA
TCGA
maf
mutation
updated 4 days ago by
Thanujay S
• 0 • written 5 days ago by
yahn
• 0
0
votes
0
replies
153
views
Homer motif analysis
Homer
4 days ago by
daffodil
▴ 10
0
votes
1
reply
206
views
visualize GSEA
barplot
RNA-seq
GSEA
enrichment
updated 4 days ago by
Ram
43k • written 5 days ago by
Rob
▴ 170
0
votes
0
replies
116
views
Clarification on StringTie's `--merge` parameters
stringtie
stringtie-merge
3 days ago by
DGTool
• 0
0
votes
0
replies
109
views
News:
Online course: Bioinformatic analysis of transposable elements
GenomeAssembly
Transcriptomics
TransposableElements
ManualCuration
3 days ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
500
views
Job:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
updated 3 days ago by
GenoMax
142k • written 3 days ago by
tulip
• 0
0
votes
0
replies
113
views
Looking for phytopathogenic, Nitrogen-Fixing, and Growth-Promoting databases for Metagenomic Analysis
Bacteria
Metagenomics
Database
3 days ago by
Christopher
• 0
0
votes
0
replies
126
views
Mitogenomes gap closure and making circular genome
gapclosure
Mitogenomes
validation
circulargenome
3 days ago by
KHURRAM SHAHZAD
• 0
0
votes
1
reply
213
views
Help with DGEList function
DGEList
R
updated 3 days ago by
marco.barr
▴ 90 • written 4 days ago by
Natali
• 0
0
votes
1
reply
299
views
DMRcate ranges liftover hg19 to hg38
DMRcate
Liftover
DMR
Methylation
annotation
updated 3 days ago by
aaron.stevens
• 0 • written 3 months ago by
sativus
▴ 20
0
votes
0
replies
113
views
How to implement an IGV to streamlit app?
python
streamlit
igv
2 days ago by
avigail.shnaider
• 0
0
votes
0
replies
112
views
Help with VG Toolkit: VCF Output is Empty
vg
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
sarumonsus
• 0
0
votes
1
reply
258
views
creating batch colum for batch correction
batch-correction
combat
2 days ago by
Expert
▴ 10
0
votes
2
replies
260
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so the model cannot be fit as specified.
DESeq2
updated 2 days ago by
GenoMax
142k • written 3 days ago by
mropri
▴ 150
191 results • Page
3 of 4
Recent Votes
Difference between Pysam Pileup and Fetch
Answer: Where can I download some example BAM files?
Comment: Where can I download some example BAM files?
Where can I download some example BAM files?
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
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Recent Replies
Answer: Contig assembly task, errors
by
Philipp Bayer
8.4k
Feels a bit strange for an aptitude test, feels more like homework. 1) seems OK to me, just chuck them into CAP3 and see what falls out.…
Comment: Help with Biopython for Beginner
by
Pierre Lindenbaum
161k
> Please do not paste screenshots of plain text content, it is counterproductive. You can copy paste the content directly here (using the c…
Answer: bcftools - reducing to "sites-only"?
by
Pierre Lindenbaum
161k
bcftools view -G in.vcf.gz <!-- Diabetic foot ulceration (DFU) is a devastating complication of diabetes whose pathogenesis rema…
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 …
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Adam
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You get this error when you try to compare two data frames that have different dimensions. Try using the traceback() command to figure out …
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Sorry, this was supposed to be a comment appended to the chain above. I didn't mean to post as an answer.
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> when I looked at the expression of aging marker genes, I noticed that diets sequenced in the same batch appeared more similar. How simil…
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Curious if others have also benefited from Picard's [CompareSAMs][1] tool. Seems to do exactly what Madhu has requested. If the headers …
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