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113,871 results • Page
2 of 2278
Sort: Rank
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Votes
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0
votes
0
replies
94
views
Conumee output as input for Gistic2.0
cnv
copy
gistic
cna
conumee
updated 1 day ago by
GenoMax
136k • written 1 day ago by
sativus
▴ 10
0
votes
0
replies
105
views
Population study based on metaT and MetaG
metagenome
metatranscriptome
study
population
updated 1 day ago by
GenoMax
136k • written 1 day ago by
PierreGT
• 0
8
votes
7
replies
465
views
p-value combination methods
rnaseq
NB-GLM
p-value
meta-Analysis
updated 14 hours ago by
Istvan Albert
99k • written 2 days ago by
sehriban.buyukkilic
• 0
0
votes
0
replies
96
views
sequencing deep mutational scanning library
mutagenesis
illumina
long-read
sequencing
1 day ago by
reaset41
• 0
0
votes
4
replies
224
views
Making multiple box plots with relative abundance in R
R
Boxplots
1 day ago by
ohtang7
▴ 40
1
vote
1
reply
145
views
Two identical reads in my bam files but with a different in CIGAR are mapped in a different location in IGV
pysam
1 day ago by
ManuelDB
▴ 80
0
votes
0
replies
79
views
GMT file from eggnog annotation
gmt
annotation
Eggnog
1 day ago by
jorge.cortes.miranda
• 0
4
votes
7
replies
264
views
regarding blast result interpretation
blast
updated 1 day ago by
dthorbur
▴ 880 • written 1 day ago by
Raman
• 0
2
votes
3
replies
198
views
Blastn DB issue
cgmlst
blastn
updated 1 day ago by
Philipp Bayer
8.1k • written 1 day ago by
hakhasan
• 0
1
vote
2
replies
192
views
How can I amend the output of a DIAMOND python script?
Python
Diamond
COG_analysis
1 day ago by
eamaunders
• 0
1
vote
2
replies
195
views
Problem in installing 'magick' R package
R
installation
package
magick
updated 1 day ago by
DBScan
▴ 210 • written 2 days ago by
applepie
• 0
0
votes
1
reply
341
views
FVA on Sybil
R
Sybil
metabolic
fba
fva
updated 1 day ago by
Thomas
• 0 • written 22 months ago by
isM15
• 0
0
votes
3
replies
261
views
Viral genes not showing up in combined mouse+virus alignment
RNAseq
1 day ago by
cook.675
▴ 210
0
votes
1
reply
157
views
How to create a mutation frequency comparison plot?
R
data-visualization
plot
updated 1 day ago by
rpolicastro
12k • written 2 days ago by
saipra003
▴ 10
0
votes
0
replies
107
views
How to find node Postion and source(sample) ?
vg
2 days ago by
zhang yi xing
▴ 20
0
votes
4
replies
296
views
CHIPSEQ : Cut AND Run , DiffBind Parameters
Cut-Run
DiffBind
ChIP-seq
1 day ago by
DINESHR
• 0
0
votes
0
replies
102
views
MUSCLE Protein Alignment of Distantly Related Proteins
muscle
protein
alignment
2 days ago by
Richard Fontaine
• 0
4
votes
6
replies
353
views
bwa mem hangs after a few thousand reads
bwa-mem
alignment
bwa
calling
variant
1 day ago by
cee28
▴ 30
2
votes
1
reply
176
views
How to get unaligned reads and aligned reads into separate files from SAM/BAM?
bam
sam
reads
fastq
updated 1 day ago by
rpolicastro
12k • written 2 days ago by
O.rka
▴ 710
2
votes
2
replies
599
views
Using ggplot2 to make barplots of RNASeq data - maintaining sample metadata when pivoting from wide to long format
rnaseq
pivot_longer
ggplot2
updated 2 days ago by
cmdcolin
★ 3.4k • written 2 days ago by
Dylan C-C
• 0
3
votes
4
replies
300
views
Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not present in R
FDR
volcano
plotting
R
plot
updated 1 day ago by
Nitin Narwade
★ 1.5k • written 2 days ago by
RNAseqer
▴ 250
0
votes
1
reply
158
views
bam or VCF files from GSE75010
bam
file
or
VCF
updated 2 days ago by
ATpoint
78k • written 2 days ago by
ahonya
• 0
0
votes
0
replies
147
views
Bcftools consensus when reference is a deletion
consensus
vcf
2 days ago by
selplat21
▴ 20
1
vote
1
reply
198
views
How should I run ssgsea analysis ?
functional
TPM
enrichment
gsea
ssgsea
updated 2 days ago by
singh.vijender
▴ 110 • written 2 days ago by
DareDevil
★ 3.3k
0
votes
5
replies
339
views
How to deeply sequence long inserts
NGS
phage
read
display
Long
updated 1 day ago by
GenoMax
136k • written 2 days ago by
Ryan
• 0
0
votes
1
reply
146
views
VCF conservation into Treemix
Treemix
Plink
VCF
updated 2 days ago by
singh.vijender
▴ 110 • written 2 days ago by
reza
▴ 300
1
vote
2
replies
222
views
Comparing 3 Data Sets using DeSeq and Heatmaps
DeSeq
Normalization
2 days ago by
harter-ainsworth.izaak
• 0
0
votes
0
replies
106
views
scVelo cell transitions from marker gene expressing cells
velocity
scvelo
RNA
2 days ago by
rbronste
▴ 420
3
votes
2
replies
195
views
Moving AF tag to new column in a VCF file
mutect2
vcf
2 days ago by
Christian
▴ 30
1
vote
5
replies
296
views
How can I map coordinates between two strains of yeast?
coordinates
yeast
genome
mapping
fasta
1 hour ago by
Jimmy
▴ 10
0
votes
1
reply
158
views
The difference blastn output when using subject and db options
genome
blastn
mite
annotation
tracker
updated 2 days ago by
GenoMax
136k • written 2 days ago by
praasu
▴ 40
1
vote
3
replies
257
views
Identify clusters of populations based on gene expression
Seq
Single
cell
RNA
updated 2 days ago by
Nitin Narwade
★ 1.5k • written 2 days ago by
Bine
▴ 50
1
vote
7
replies
360
views
featureCounts results: low rate of 'Successfully assigned alignments'
FeatureCounts
HISAT2
RNA-seq
1 day ago by
Hamtaro
▴ 10
0
votes
1
reply
159
views
Python function to export the annotated records to genbank file using python and biopython
biopython
python
bioinformatic
programming
updated 2 days ago by
barslmn
★ 2.0k • written 2 days ago by
Saurabh
• 0
1
vote
6
replies
335
views
Discrepancy in total number of bases in trimmed read1 and read2 files after BBDuk
bbduk
2 days ago by
CTLong
▴ 20
2
votes
1
reply
155
views
unicycler error : [Errno 13] Permission denied:
unicycler
updated 2 days ago by
barslmn
★ 2.0k • written 2 days ago by
jiyoung
▴ 20
2
votes
4
replies
436
views
Protein Database
protein
course
database
updated 2 days ago by
Elisabeth Gasteiger
★ 2.3k • written 6 days ago by
Mery
• 0
0
votes
0
replies
98
views
Does breadth of coverage signify expression?
Coverage
breadth
Bedtools
Expression
count
2 days ago by
Smriti
▴ 10
0
votes
6
replies
289
views
I made an error when using metawrap to binning
metagenome
binning
metawrap
2 days ago by
alice005201314
• 0
1
vote
4
replies
267
views
Bowtie mapping for single_end read
bowtie
2 days ago by
Rita
• 0
0
votes
4
replies
179
views
MRI VBM issue
MRI
VBM
ROI
Rhesus
3 days ago by
Ethan Lee
• 0
5
votes
3
replies
264
views
SPAdes error: finished abnormally, OS return value: 21
SPAdes
updated 2 days ago by
Brian Bushnell
19k • written 3 days ago by
jiyoung
▴ 20
0
votes
5
replies
535
views
Lack of correspondance of GFA node IDs to giraffe/call node IDs
giraffe
pggb
vg
updated 3 days ago by
Wenhai
• 0 • written 6 weeks ago by
javierbelmor
• 0
0
votes
0
replies
106
views
missing region in the process of annotation
annotatr
minfi
3 days ago by
Aki
▴ 10
0
votes
3
replies
4.0k
views
pheatmap lengends are being cutoff
pheatmap
legends
rstudio
heatmaps
updated 3 days ago by
Chris S.
▴ 320 • written 2.7 years ago by
enh
• 0
0
votes
0
replies
331
views
Job:
Postdoctoral Researcher in Alzheimer's disease Genetics, Multi-Omics, and Imaging Biomarkers, St Louis, MO, USA
Multi-Omics
Imaging
Alzheimer
Genetics
3 days ago by
belloy
• 0
0
votes
2
replies
220
views
using RSEM with non Trinity assembly
SPAdes
Trinity
RSEM
3 days ago by
jen
• 0
0
votes
2
replies
314
views
Help doing differential expression analysis -experimental design and gProfiler TF interpretation-
gProfiler
mRNA
Differential-expression
TCGA
updated 2 days ago by
rajabolacuan
• 0 • written 9 days ago by
Camilo Andres
▴ 40
0
votes
1
reply
252
views
Diferences between TCGAbiolinks and cBioportal
R
TCGAbiolinks
cBioportal
updated 3 days ago by
Zhenyu Zhang
★ 1.1k • written 7 days ago by
jomagrax
▴ 40
1
vote
0
replies
97
views
Visualize and explore eventalign data against reference
igv
minimap
nanopolish
nanopore
ngs
3 days ago by
joe
▴ 390
113,871 results • Page
2 of 2278
Recent Votes
A: Collapsing biological replicates for co-expression analysis using WGCNA
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
Seurat integration of two datasets - GSE126783
about batch correction in scRNA-seq
How to compare two Seurat object (sample) in order to find top markers?
How do I resolve an integration error in Seurat?
The difference between merge and integration with Seurat objects
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Recent Replies
Comment: How can I map coordinates between two strains of yeast?
by
Jimmy
▴ 10
Yes (S. cerevisiae)
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
by
GenoMax
136k
> less than 100 for some samples Hmm. That is surprising but then in light of that fact ~20% recovery of cells does not sound bad.
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
by
newbee
▴ 40
Thanks for raising these valid points. I do not have the answer right now. Lately, I heard from the PI that they started with a small numbe…
Comment: How to get multiple protein domain database domain name from id's
by
GenoMax
136k
A list of InterPro domains is available: https://ftp.ebi.ac.uk/pub/databases/interpro/current_release/entry.list
Answer: DIAMOND tutorial
by
GenoMax
136k
`DIAMOND` has a wiki page: https://github.com/bbuchfink/diamond/wiki Links for DIAMOND papers are here: https://github.com/bbuchfink/diamo…
Comment: How to do simple pathway analysis?
by
AK
★ 2.2k
Hi [he1k](https://www.biostars.org/u/139817/), Please use the following script which downloads and parses the keg data on the fly: [keg_hi…
Comment: Is there a need to batch correct FPKM or TPM values for within sample comparison
by
CTLong
▴ 20
That's what I would assume, because we are not taking into account cross sample differences here. Thanks
Comment: Is there a need to batch correct FPKM or TPM values for within sample comparison
by
CTLong
▴ 20
That's a good point. So its probably safest to not batch correct for within sample comparisons I guess?
Answer: Generating count matrix from Chromium Fixed RNA Profiling (FRP) data outside Cel
by
MohammadAlkadi
▴ 70
What is the purpose of doing so? I tried to do that by using the bam file generated by CellRanger. One **important detail** if you are work…
Comment: Guidance on Crucial Parameters for Bioinformatic Analysis of Metabolomic Data
by
Kevin Blighe
86k
Thank you - appreciate the translation.
Answer: Guidance on Crucial Parameters for Bioinformatic Analysis of Metabolomic Data
by
Kevin Blighe
86k
Em geral, uma taxa de descoberta falsa de 5% (p ajustado<0,05 ) deve ser usada para qualquer teste estatístico em que múltiplas hipóteses i…
Answer: WGCNA tutorial docs needed: Horvath Lab site down
by
ATpoint
78k
See link here from the developer: https://bioinformatics.stackexchange.com/a/21886/16676
Comment: WGCNA tutorial docs needed: Horvath Lab site down
by
Katie
• 0
I would also appreciate the PDFs if anyone has them please
Answer: Loftee no splice site annotations
by
AMARU
• 0
Hey, did you solve it? I am having a very similar issue. Thanks
Answer: Bulk and Single Cell RNA-seq online course
by
swbarnes2
13k
I'd start by getting tutorials for R libraries like DESeq, EdgeR, Seurat, etc, and learn by doing.
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