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801 results • Page
4 of 17
Sort: Rank
Rank
Views
Votes
Replies
0
votes
5
replies
316
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
3 days ago by
SilhouetteQ
• 0
0
votes
1
reply
188
views
Alignment of samples with spike-in
alignment
multimapping
RNA-seq
ChIP-seq
spike-in
updated 6 days ago by
GenoMax
142k • written 6 days ago by
maria.soler
• 0
0
votes
2
replies
293
views
How are score_weights calculated in this code?
single-cell
6 days ago by
carolofharvest
▴ 40
0
votes
1
reply
223
views
How to convert Haps file to vcf file?
pre-phasing
GWAS
imputation
updated 6 days ago by
curious
▴ 750 • written 7 days ago by
SeoGyun
• 0
0
votes
0
replies
156
views
Trouble converting tfam and tped to map and ped files
plink
ped
tfam
tped
map
7 days ago by
Samantha
• 0
0
votes
1
reply
191
views
Microbial Signal Transduction Database
MiST
updated 7 days ago by
zx8754
11k • written 7 days ago by
Shravani
• 0
1
vote
1
reply
215
views
DESeq2 error
DESeq2
updated 7 days ago by
ATpoint
82k • written 7 days ago by
sooni
▴ 20
0
votes
0
replies
144
views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq
imprinted
10x
genes
7 days ago by
singcell
• 0
0
votes
1
reply
217
views
When should I use R-MarkDown over R-Script ?
r
rscript
rmarkdown
updated 7 days ago by
ATpoint
82k • written 7 days ago by
Amr
▴ 160
0
votes
2
replies
230
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
7 days ago by
jain72744
▴ 10
6
votes
2
replies
236
views
EdgeR - relationship between logFC and coefficients
differential-expression
r
edger
updated 7 days ago by
Gordon Smyth
★ 7.2k • written 7 days ago by
gBioStar5
▴ 10
2
votes
5
replies
404
views
Importing a fastq file
Fastq
updated 7 days ago by
size_t
▴ 120 • written 8 days ago by
oumo
• 0
3
votes
1
reply
206
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 6 days ago by
dthorbur
★ 2.0k • written 7 days ago by
Eren
• 0
0
votes
0
replies
154
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
7 days ago by
Aytaç
• 0
0
votes
0
replies
170
views
How do I calculate SE or P value if I only have BETA
prscsx
beta
se
pvalue
updated 7 days ago by
zx8754
11k • written 7 days ago by
curious_butterfly
• 0
0
votes
0
replies
162
views
supervised admixture
supervised
admixture
7 days ago by
RT
▴ 10
2
votes
0
replies
155
views
News:
course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics
SNPs
LocalAdaptation
GIS
7 days ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
449
views
Different output for read length
samtools
BAM
7 days ago by
marco.barr
▴ 120
0
votes
1
reply
364
views
Snakemake fails to find conda in PBS
snakemake
updated 7 days ago by
tim.booth
▴ 60 • written 5 weeks ago by
yixinzeng
• 0
0
votes
2
replies
228
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 6 days ago by
Ram
43k • written 7 days ago by
sainavyav22
• 0
3
votes
4
replies
318
views
Truncated metadata file report from ENA Portal API
ena
python
6 days ago by
Giulia
• 0
0
votes
0
replies
188
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
7 days ago by
Matvii Mykhailichenko
• 0
0
votes
3
replies
561
views
JASPAR2024_getMatrixSet error
JASPAR2024
getMatrixSet
updated 7 days ago by
Ram
43k • written 12 weeks ago by
maplewj
▴ 10
0
votes
5
replies
330
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
4 days ago by
feather-W
• 0
0
votes
3
replies
298
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 7 days ago by
Pierre Lindenbaum
161k • written 8 days ago by
Matthew
• 0
0
votes
1
reply
155
views
input file for alternative splicing in rmats in linux
rmats
updated 7 days ago by
Ram
43k • written 7 days ago by
Lambodarswain316
• 0
2
votes
2
replies
246
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
updated 7 days ago by
Michael
54k • written 8 days ago by
ashaneev07
▴ 20
1
vote
1
reply
452
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 7 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 7 days ago by
Pierre Lindenbaum
161k • written 8 days ago by
Lila M
★ 1.2k
2
votes
3
replies
228
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 7 days ago by
Pierre Lindenbaum
161k • written 7 days ago by
ScottDansk
▴ 10
1
vote
0
replies
142
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
8 days ago by
Shae
▴ 10
0
votes
1
reply
194
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 8 days ago by
marco.barr
▴ 120 • written 8 days ago by
odi
▴ 10
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 7 days ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
160
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 8 days ago by
andres.firrincieli
3.6k • written 8 days ago by
kacollier
▴ 30
1
vote
2
replies
1.7k
views
Seurat CellCycleScoring – confused about the proper order of operations when using SCTransform
CellCycleScoring
SCTransform
Seurat
updated 8 days ago by
Li
• 0 • written 2.3 years ago by
GPM
▴ 10
0
votes
0
replies
118
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 8 days ago by
Ram
43k • written 8 days ago by
curious_butterfly
• 0
1
vote
4
replies
339
views
Contig assembly task, errors
dna
genetics
contig
assembly
updated 3 days ago by
Ram
43k • written 8 days ago by
samRayne
• 0
1
vote
3
replies
263
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 7 days ago by
GenoMax
142k • written 8 days ago by
cput
• 0
0
votes
0
replies
121
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
8 days ago by
asalimih
▴ 60
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 8 days ago by
Emanoelle
• 0 • written 5.8 years ago by
Elizabeth
▴ 30
0
votes
2
replies
230
views
Obtaining Infinium Methylation450K manifest for hg38
TCGA
hg38
methylation
Illumina
updated 4 days ago by
Zhenyu Zhang
★ 1.2k • written 8 days ago by
elisheva
▴ 120
0
votes
0
replies
108
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 8 days ago by
Ram
43k • written 8 days ago by
mathavanbioinfo
▴ 90
1
vote
1
reply
282
views
Seurat V5 integration
Seurat
integration
updated 8 days ago by
Ram
43k • written 12 days ago by
starswillfade
▴ 10
0
votes
2
replies
227
views
Error in plotting PCA plot in seurat
PCA
single-cell
seurat
scRNA
RNA
updated 8 days ago by
Ram
43k • written 9 days ago by
Sumeet
• 0
0
votes
0
replies
126
views
News:
Online course: Introduction to Deep Learning
Python
Deep-Learning
Convolutional-Neural-Network
Machine-Learning
updated 8 days ago by
Ram
43k • written 8 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 8 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
0
votes
2
replies
173
views
How/where can I get fungal mitogenome data for analysis?
fungal
mitogenome
updated 8 days ago by
GenoMax
142k • written 8 days ago by
madders73
• 0
4
votes
2
replies
271
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
8 days ago by
mnx0723
• 0
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 8 days ago by
chloek88
• 0 • written 5.6 years ago by
Philipp Bayer
8.5k
5
votes
7
replies
484
views
RNA seq analysis
DESeq
RNA-seq
2 days ago by
Jacek
▴ 20
801 results • Page
4 of 17
Recent Votes
Answer: Generating consensus sequence from bam file
Answer: Short Read Data Genome Assembly
Comment: API kegg - IndexError: list index out of range
Comment: How does FindNeighbors() and FindClusters() related and work?
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
lncRNA and ncPEPs identification
Answer: Identifying common DEGs among multiple datasets
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ashkan
▴ 160
Supporter
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Umer
▴ 50
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zx8754
11k
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6.6k
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Nyksubuz
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Recent Replies
Answer: How to handle duplicated genes in TCGA data?
by
txema.heredia
▴ 130
Having duplicate gene symbols is pretty common. Why do you need to work with gene symbols? To compare them to external datasets? Or just fo…
Comment: Merge clusters in Seurat UMAP
by
kilcdincer
▴ 10
It did not help either. But I got the answer [here][1] Thank you! [1]: https://github.com/satijalab/seurat/issues/8902
Comment: How to generate table_annovar from VCF input?
by
Pierre Lindenbaum
161k
there is no `--allsample` option in the "usage" screen you're showing. I suspect you're using an old version ?
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
egascon
• 0
Thank you very much again. I have learned a lot of things.
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
egascon
• 0
It's a microarryay experiment, not RNASeq
Comment: Sam file Header problem
by
Pierre Lindenbaum
161k
https://gatk.broadinstitute.org/hc/en-us/articles/360035890671-Read-groups
Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
DGTool
▴ 20
I have also recently come across another global alignment algorithm that was recently released which could seem pretty interesting to test …
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
b.contreras.moreira
▴ 190
Not sure, you might ask in the repo, please share here the response if you find it
Comment: How to generate table_annovar from VCF input?
by
LucisTheFather
• 0
Would you be more specific to your question? Do you mean how to debug this syntax error?
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
thank you
Comment: How to extract cells of different species after mapping with combined genome?
by
Tony
• 0
I think this method should be applicable to all high-throughput single-cell RNA-seq platforms. Although the method of determining cell spec…
Comment: BiomartException: Query ERROR for existing dataset in BioMart
by
Nyksubuz
▴ 20
The dataset you want (taestivum_eg_gene) exists within the "plants_mart" schema, not the default schema. Your current code assumes the defa…
Comment: Add line under stat test
by
Nyksubuz
▴ 20
You could use [this][1] [1]: https://ggplot2.tidyverse.org/reference/geom_segment.html
Comment: API kegg - IndexError: list index out of range
by
Nyksubuz
▴ 20
It might be because the gene symbol is not found in the KEGG database. Add some extra error handling before parsing the results or do a man…
Comment: Sam file Header problem
by
saifulislam99121
• 0
Thank you for your reply. I am not very much sure about this RG. Can you explain me a bit?
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