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116,859 results • Page
1 of 2338
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0
votes
0
replies
9
views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq
imprinted
10x
genes
30 minutes ago by
singcell
• 0
0
votes
0
replies
10
views
When should I use R-MarkDown over R-Script ?
r
rscript
rmarkdown
31 minutes ago by
Amr
▴ 160
0
votes
0
replies
8
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
30 minutes ago by
jain72744
▴ 10
0
votes
0
replies
7
views
Nomalization - TCGA, RNA-seq and Microarray
TCGA
RNA-seq
Nomalization
Microarray
37 minutes ago by
jain72744
▴ 10
795
votes
167
replies
143k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
3
votes
2
replies
42
views
EdgeR - relationship between logFC and coefficients
differential-expression
r
edger
updated 10 minutes ago by
Gordon Smyth
★ 7.1k • written 2 hours ago by
gBioStar5
• 0
0
votes
0
replies
11
views
DESeq2 error
DESeq2
2 hours ago by
sooni
▴ 20
1
vote
5
replies
212
views
Importing a fastq file
Fastq
updated 2 hours ago by
size_t
▴ 120 • written 22 hours ago by
oumo
• 0
0
votes
0
replies
31
views
Question about methylation location
Methylation
WGBS
bisulfide
5 hours ago by
Eren
• 0
0
votes
0
replies
34
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
6 hours ago by
Aytaç
• 0
0
votes
0
replies
43
views
How do I calculate SE or P value if I only have BETA
prscsx
se
pvalue
beta
7 hours ago by
curious_butterfly
• 0
0
votes
0
replies
44
views
supervised admixture
supervised
admixture
8 hours ago by
RT
▴ 10
0
votes
0
replies
49
views
Two-Sample Mendelian Randomization: Association between Instrumental Variable and Outcome
Randomization
Mendelian
two-sample
9 hours ago by
Nikki
• 0
2
votes
0
replies
48
views
News:
course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics
SNPs
LocalAdaptation
GIS
10 hours ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
264
views
Different output for read length
samtools
BAM
9 hours ago by
marco.barr
▴ 100
0
votes
1
reply
264
views
Snakemake fails to find conda in PBS
snakemake
updated 12 hours ago by
tim.booth
▴ 60 • written 27 days ago by
yixinzeng
• 0
0
votes
2
replies
116
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 11 hours ago by
GenoMax
142k • written 13 hours ago by
sainavyav22
• 0
0
votes
1
reply
89
views
Truncated metadata file report from ENA Portal API
ena
python
updated 8 hours ago by
GenoMax
142k • written 13 hours ago by
Giulia
• 0
0
votes
0
replies
53
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
13 hours ago by
Matvii Mykhailichenko
• 0
0
votes
3
replies
461
views
JASPAR2024_getMatrixSet error
JASPAR2024
getMatrixSet
updated 14 hours ago by
Ram
43k • written 11 weeks ago by
maplewj
▴ 10
0
votes
3
replies
137
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
updated 14 hours ago by
Ram
43k • written 16 hours ago by
feather-W
• 0
0
votes
3
replies
193
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 15 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
Matthew
• 0
3
votes
4
replies
2.9k
views
Have you ever obtained user guide of ExomeCNV?
CNV
updated 4.4 years ago by
lffu_0032
▴ 90 • written 5.2 years ago by
oghzzang
▴ 50
0
votes
1
reply
81
views
input file for alternative splicing in rmats in linux
rmats
updated 13 hours ago by
Ram
43k • written 16 hours ago by
Lambodarswain316
• 0
0
votes
2
replies
148
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
updated 17 hours ago by
Michael
54k • written 23 hours ago by
ashaneev07
▴ 20
1
vote
1
reply
391
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 18 hours ago by
Jaïr
• 0 • written 4 months ago by
NorbertK
▴ 10
4
votes
3
replies
1.8k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 17 hours ago by
Pierre Lindenbaum
161k • written 19 hours ago by
Lila M
★ 1.2k
1
vote
3
replies
143
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 18 hours ago by
Pierre Lindenbaum
161k • written 18 hours ago by
ScottDansk
▴ 10
1
vote
0
replies
81
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
20 hours ago by
Shae
▴ 10
0
votes
1
reply
143
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 21 hours ago by
marco.barr
▴ 100 • written 1 day ago by
odi
▴ 10
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 18 hours ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
109
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 22 hours ago by
andres.firrincieli
3.6k • written 22 hours ago by
kacollier
▴ 30
1
vote
2
replies
1.5k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 1 day ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
85
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 1 day ago by
Ram
43k • written 1 day ago by
curious_butterfly
• 0
0
votes
0
replies
89
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
19 hours ago by
Zeng Hao
▴ 40
0
votes
3
replies
186
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
updated 3 hours ago by
Philipp Bayer
8.4k • written 1 day ago by
rackbersingh
• 0
1
vote
3
replies
190
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 12 hours ago by
GenoMax
142k • written 1 day ago by
cput
• 0
0
votes
0
replies
95
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
1 day ago by
asalimih
▴ 60
0
votes
5
replies
364
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
updated 12 hours ago by
Jeremy Leipzig
22k • written 2 days ago by
schmince
• 0
0
votes
2
replies
212
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 19 hours ago by
i.sudbery
19k • written 1 day ago by
Prawesh
• 0
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 1 day ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
1
reply
150
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 1 day ago by
marco.barr
▴ 100 • written 1 day ago by
elisheva
▴ 120
0
votes
0
replies
86
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 1 day ago by
Ram
43k • written 1 day ago by
mathavanbioinfo
▴ 90
1
vote
1
reply
243
views
Seurat V5 integration
Seurat
integration
updated 1 day ago by
Ram
43k • written 4 days ago by
starswillfade
▴ 10
0
votes
2
replies
197
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 1 day ago by
Ram
43k • written 1 day ago by
Sumeet
• 0
0
votes
0
replies
107
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 1 day ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
141
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 1 day ago by
GenoMax
142k • written 1 day ago by
madders73
• 0
4
votes
2
replies
240
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
1 day ago by
mnx0723
• 0
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 1 day ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
116,859 results • Page
1 of 2338
Recent Votes
Detecting highly variable genes within replicates
Detecting highly variable genes within replicates
A: Detecting highly variable genes within replicates
How to set a threshold for coefficient of variation in RNA-seq?
What is Deepvariant default filtering values ?
Answer: EdgeR - relationship between logFC and coefficients
Answer: EdgeR - relationship between logFC and coefficients
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Amr
▴ 160
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13k
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• 0
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★ 7.1k
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Recent Replies
Comment: EdgeR - relationship between logFC and coefficients
by
gBioStar5
• 0
Thanks a lot, this was very helpful. I'll keep that in mind.
Answer: EdgeR - relationship between logFC and coefficients
by
Gordon Smyth
★ 7.1k
Results presented by topTags() are on the log2 scale. Coefficients stored internally in the DGELRT object are on the loge scale. If you con…
Answer: Importing a fastq file
by
size_t
▴ 120
run command `explorer.exe .` in wsl terminal, and then drag file to folder
Comment: Contig assembly task, errors
by
Philipp Bayer
8.4k
Hi Ricardo! CAP3 is an 'older' overlap assembler from 1999 which is perfectly suited for these kinds of 'small' tasks. I used it last in my…
Comment: absolute path for symbolic links in Snakefile
by
Jesse
▴ 770
That's really handy, and much more of a general solution than stripping off the directory names! So yifangt86, if you're on Linux you can …
Comment: Truncated metadata file report from ENA Portal API
by
GenoMax
142k
Are you missing a `"` at the end of the URL. Doing wget -O test.out "https://www.ebi.ac.uk/ena/portal/api/filereport?accession=PRJNA43…
Comment: Different output for read length
by
marco.barr
▴ 100
very strange, I double checked the BAM file and it is the same one I used for your request. Are the commands I wrote above correct? How is …
Comment: Different output for read length
by
Pierre Lindenbaum
161k
the first read as a length of 1747, i wonder how you can just find '50' $ wget -qO - "https://gist.githubusercontent.com/Macdot3/4650…
Comment: Problem with Seurat package in PercentageFeatureSet function
by
bk11
★ 2.4k
Yes, `CreateAssayObject` function is used for only expression matrix.
Comment: Different output for read length
by
marco.barr
▴ 100
Here is my result, I hope you can see it. [https://gist.github.com/Macdot3/4650243a10540d8c06f728ffc16a136c][1] [1]: https://gist.gith…
Comment: Different output for read length
by
marco.barr
▴ 100
I just published my link on paste, why can't I see my public paste on the site?
Comment: cellranger error message
by
Max
• 0
I'm having a similar issue. The sample_id matches the filename prefix before _S1_L001, but I get the error: Log message: Requested sample(s…
Comment: Different output for read length
by
marco.barr
▴ 100
Thanks so much GenoMax, I'm sharing the link as you told me
Comment: Different output for read length
by
GenoMax
142k
Post the data at pastebin.com and add a link here or you could a GitHub gist. You were suspended by biostars SPAM bot since you pasted link…
Comment: Different output for read length
by
GenoMax
142k
Post the data at pastebin.com and add the link here. You were suspended by biostars SPAM bot since you pasted these links in quick successi…
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