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13,179 results • Page
2 of 264
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Votes
Replies
0
votes
2
replies
257
views
How are score_weights calculated in this code?
single-cell
2 days ago by
carolofharvest
▴ 40
0
votes
1
reply
208
views
How to convert Haps file to vcf file?
pre-phasing
GWAS
imputation
updated 2 days ago by
curious
▴ 750 • written 3 days ago by
SeoGyun
• 0
0
votes
0
replies
149
views
Trouble converting tfam and tped to map and ped files
plink
ped
tfam
tped
map
3 days ago by
Samantha
• 0
0
votes
1
reply
179
views
Microbial Signal Transduction Database
MiST
updated 3 days ago by
zx8754
11k • written 3 days ago by
Shravani
• 0
0
votes
1
reply
194
views
DESeq2 error
DESeq2
updated 3 days ago by
ATpoint
82k • written 3 days ago by
sooni
▴ 20
0
votes
0
replies
137
views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq
imprinted
10x
genes
3 days ago by
singcell
• 0
0
votes
1
reply
203
views
When should I use R-MarkDown over R-Script ?
r
rscript
rmarkdown
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Amr
▴ 160
0
votes
2
replies
213
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
3 days ago by
jain72744
▴ 10
6
votes
2
replies
215
views
EdgeR - relationship between logFC and coefficients
differential-expression
r
edger
updated 3 days ago by
Gordon Smyth
★ 7.1k • written 3 days ago by
gBioStar5
▴ 10
2
votes
5
replies
377
views
Importing a fastq file
Fastq
updated 3 days ago by
size_t
▴ 120 • written 4 days ago by
oumo
• 0
3
votes
1
reply
191
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 3 days ago by
dthorbur
★ 1.9k • written 3 days ago by
Eren
• 0
0
votes
0
replies
147
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
3 days ago by
Aytaç
• 0
0
votes
0
replies
161
views
How do I calculate SE or P value if I only have BETA
prscsx
beta
se
pvalue
updated 3 days ago by
zx8754
11k • written 3 days ago by
curious_butterfly
• 0
0
votes
0
replies
152
views
supervised admixture
supervised
admixture
3 days ago by
RT
▴ 10
2
votes
0
replies
147
views
News:
course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics
SNPs
LocalAdaptation
GIS
3 days ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
412
views
Different output for read length
samtools
BAM
3 days ago by
marco.barr
▴ 100
0
votes
1
reply
357
views
Snakemake fails to find conda in PBS
snakemake
updated 3 days ago by
tim.booth
▴ 60 • written 4 weeks ago by
yixinzeng
• 0
0
votes
2
replies
211
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 2 days ago by
Ram
43k • written 4 days ago by
sainavyav22
• 0
3
votes
4
replies
292
views
Truncated metadata file report from ENA Portal API
ena
python
2 days ago by
Giulia
• 0
0
votes
0
replies
180
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
4 days ago by
Matvii Mykhailichenko
• 0
0
votes
3
replies
544
views
JASPAR2024_getMatrixSet error
JASPAR2024
getMatrixSet
updated 4 days ago by
Ram
43k • written 11 weeks ago by
maplewj
▴ 10
0
votes
5
replies
295
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
12 hours ago by
feather-W
• 0
0
votes
3
replies
282
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
Matthew
• 0
0
votes
1
reply
143
views
input file for alternative splicing in rmats in linux
rmats
updated 4 days ago by
Ram
43k • written 4 days ago by
Lambodarswain316
• 0
2
votes
2
replies
227
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
updated 4 days ago by
Michael
54k • written 4 days ago by
ashaneev07
▴ 20
1
vote
1
reply
437
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 4 days ago by
Jaïr
• 0 • written 4 months ago by
NorbertK
▴ 10
4
votes
3
replies
2.9k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
Lila M
★ 1.2k
2
votes
3
replies
210
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
ScottDansk
▴ 10
1
vote
0
replies
131
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
4 days ago by
Shae
▴ 10
0
votes
1
reply
182
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 4 days ago by
marco.barr
▴ 100 • written 4 days ago by
odi
▴ 10
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 4 days ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
148
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 4 days ago by
andres.firrincieli
3.6k • written 4 days ago by
kacollier
▴ 30
1
vote
2
replies
1.6k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 4 days ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
111
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 4 days ago by
Ram
43k • written 4 days ago by
curious_butterfly
• 0
1
vote
4
replies
312
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
2 days ago by
samRayne
• 0
1
vote
3
replies
234
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 3 days ago by
GenoMax
142k • written 4 days ago by
cput
• 0
0
votes
0
replies
115
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
4 days ago by
asalimih
▴ 60
0
votes
2
replies
242
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 4 days ago by
i.sudbery
19k • written 4 days ago by
Prawesh
• 0
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 4 days ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
2
replies
212
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 17 hours ago by
Zhenyu Zhang
★ 1.2k • written 4 days ago by
elisheva
▴ 120
0
votes
0
replies
101
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 4 days ago by
Ram
43k • written 4 days ago by
mathavanbioinfo
▴ 90
1
vote
1
reply
270
views
Seurat V5 integration
Seurat
integration
updated 4 days ago by
Ram
43k • written 8 days ago by
starswillfade
▴ 10
0
votes
2
replies
217
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 4 days ago by
Ram
43k • written 5 days ago by
Sumeet
• 0
0
votes
0
replies
118
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 4 days ago by
Ram
43k • written 4 days ago by
carlopecoraro2
★ 2.5k
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 5 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
151
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 5 days ago by
GenoMax
142k • written 5 days ago by
madders73
• 0
4
votes
2
replies
255
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
4 days ago by
mnx0723
• 0
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 5 days ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
4
votes
6
replies
371
views
RNA seq analysis
DESeq
RNA-seq
updated 2 hours ago by
Matthias Zepper
4.6k • written 5 days ago by
prifa
▴ 10
10
votes
3
replies
306
views
TFs and Gene databases
Transcription-factor
Target
Regulatory-Networks
updated 5 days ago by
b.contreras.moreira
▴ 180 • written 5 days ago by
ijarne
• 0
13,179 results • Page
2 of 264
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Comment: consensus sequence calling
by
bk11
★ 2.4k
Please check out these posts https://www.biostars.org/p/367626/
Comment: Galaxy StringTie error
by
trkfs
• 0
will do, thank you
Answer: Splitting Seurat object by sample layers
by
bk11
★ 2.4k
You can do the following- Idents(SeuratObj) <- "orig.ident" control_set <- subset(SeuratObj, idents = c("counts.control","data.…
Comment: Galaxy StringTie error
by
GenoMax
142k
> I have sent a bug report to the Galaxy administrator If you have not done so please post this in Galaxy help forum for directed help: h…
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by
Thind amarinder
▴ 340
Wondering, if it was total RNAseq data? or ployA
Comment: RNA seq analysis
by
Matthias Zepper
4.6k
It is still obscure to me how many different tissues you would like to include into your comparison and what your intended design is. To …
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
by
Juke34
8.6k
You can get a look here https://www.biostars.org/p/9465973/
Answer: Mouse ribosome sequences in fasta format
by
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142k
A version of the mouse rDNA repeat can be found here: https://www.ncbi.nlm.nih.gov/nuccore/BK000964 Use the dropdown menu at top-left t…
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by
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• 0
Hello, Mathew. Firstly, thank you for answering my question. **Sorry, what analysis are you trying to perform with these databases?** I a…
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
by
GenoMax
142k
As long as it is the same GIAB sample you could compare your SNP with the SNP's available for the whole genome set.
Comment: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log
by
yau
• 0
Dear Mensur, Thanks so much for your reply!! In my case, I got 1 control(healthy) and 2 disease mouse Single cell RNA-sew data, so I …
Comment: BWA alignment
by
ATpoint
82k
The relevant code line is precisely the same as in the question.
Answer: imputation through beagle
by
dthorbur
★ 1.9k
Building a reference panel from the samples you intend to impute seems like a very circular approach. Plus, GBS is a reduced representation…
Answer: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log
by
Mensur Dlakic
★ 27k
You seem to have too stringent of a p-value cutoff (1e-5). Hopefully you get the concept of how the interplay of `-log10P-value` and `log2F…
Comment: Single-cell RNA-seq FindMarker and EnhancedVolcano Plot: most genes are low -log
by
yau
• 0
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