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1,000 results • Page
2 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
1
reply
161
views
consensus sequence calling
consensus
updated 3 days ago by
bk11
★ 2.5k • written 3 days ago by
Ghada
• 0
0
votes
0
replies
88
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
3 days ago by
JACKY
▴ 140
0
votes
0
replies
101
views
Reference panel of normals for ensembl named refgenome
Mutect2
4 days ago by
gernophil
▴ 80
1
vote
0
replies
96
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
4 days ago by
tomas4482
▴ 400
3
votes
2
replies
189
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 4 days ago by
ATpoint
82k • written 4 days ago by
jennyp0706
• 0
0
votes
0
replies
109
views
lncRNA
tcga
lncrna
4 days ago by
jain72744
▴ 10
1
vote
2
replies
358
views
How to remove multiple batch effects from RNA-seq data before limma differential gene expression analysis?
ComBat-seq
limma
RNA-seq
removeBatchEffect
batch-effect
updated 3 days ago by
Ram
43k • written 4 days ago by
t.fortunato.asquini
• 0
0
votes
2
replies
209
views
Output file of samtools flagstat empty
samtools-flagstat
updated 4 days ago by
colindaven
6.4k • written 4 days ago by
ramendra.sarma
• 0
0
votes
4
replies
397
views
Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in python.
k
4 days ago by
beginner123
• 0
0
votes
2
replies
229
views
java.nio.bufferunderflowexception haplotypecaller error for bqsr reads
deducplicated
java.nio.bufferunderflowexception
haplotypecaller
bqsr
4 days ago by
analyst
▴ 50
0
votes
1
reply
203
views
extract viral protein of interest from 10k whole viral genomes
nBLAST
viral-genome
updated 6 days ago by
Ram
43k • written 6 days ago by
Shwetha
• 0
0
votes
0
replies
164
views
Marker Features variance by cluster, sample, and treatment group
Seurat
scATAC-seq
ArchR
updated 6 days ago by
Ram
43k • written 6 days ago by
naomiboldon
• 0
1
vote
3
replies
283
views
How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
gatk
vcf
liftover
updated 6 days ago by
Ram
43k • written 6 days ago by
Omics data mining
▴ 260
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
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
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
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
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
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
1
vote
0
replies
142
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
8 days ago by
Shae
▴ 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
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
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
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
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
0
votes
0
replies
147
views
Chance for trained without experience
bio
updated 8 days ago by
ATpoint
82k • written 8 days ago by
shehab
• 0
0
votes
0
replies
126
views
Xenium multi sample data
batch
annotation
cell
Xenium
effect
9 days ago by
Omics data mining
▴ 260
0
votes
2
replies
187
views
Phasing a mixture of two individuals' DNA with long reads
long-reads
phasing
8 days ago by
njornet
▴ 20
0
votes
2
replies
213
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 8 days ago by
Adam
▴ 30 • written 9 days ago by
Darya
• 0
0
votes
5
replies
273
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 8 days ago by
Joe
21k • written 9 days ago by
Lemonhope
• 0
0
votes
0
replies
180
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
8 days ago by
Winter
• 0
0
votes
0
replies
108
views
meffil.snp.concordance
meffil
methylation
snp_concordance
9 days ago by
kyj222637
• 0
0
votes
1
reply
162
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 8 days ago by
Bastien Hervé
5.3k • written 9 days ago by
sooni
▴ 20
1
vote
3
replies
256
views
STAR aligner error
RNA-seq
STAR
slurm
updated 8 days ago by
Ram
43k • written 9 days ago by
M.
▴ 30
0
votes
0
replies
101
views
monocle 3-- Could not get node in small cluster
monocle3
9 days ago by
synat.keam
▴ 100
1,000 results • Page
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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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Comment: solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* err
by
GenoMax
142k
> INPUT FILE error: could not open input file /geneInfo.tab Based on the error it appears that the input file you are providing could not …
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…
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