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Limit : this week
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89 results • Page
2 of 2
Sort: Rank
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Votes
Replies
0
votes
2
replies
221
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
5 days ago by
jain72744
▴ 10
3
votes
1
reply
201
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 5 days ago by
dthorbur
★ 2.0k • written 5 days ago by
Eren
• 0
0
votes
0
replies
151
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
5 days ago by
Aytaç
• 0
0
votes
0
replies
166
views
How do I calculate SE or P value if I only have BETA
prscsx
beta
se
pvalue
updated 5 days ago by
zx8754
11k • written 5 days ago by
curious_butterfly
• 0
0
votes
0
replies
156
views
supervised admixture
supervised
admixture
5 days ago by
RT
▴ 10
0
votes
2
replies
223
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 4 days ago by
Ram
43k • written 5 days ago by
sainavyav22
• 0
3
votes
4
replies
309
views
Truncated metadata file report from ENA Portal API
ena
python
4 days ago by
Giulia
• 0
0
votes
0
replies
185
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
5 days ago by
Matvii Mykhailichenko
• 0
0
votes
1
reply
150
views
input file for alternative splicing in rmats in linux
rmats
updated 5 days ago by
Ram
43k • written 6 days ago by
Lambodarswain316
• 0
1
vote
1
reply
447
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 6 days ago by
Jaïr
• 0 • written 4 months ago by
NorbertK
▴ 10
1
vote
0
replies
136
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
6 days ago by
Shae
▴ 10
1
vote
1
reply
157
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 6 days ago by
andres.firrincieli
3.6k • written 6 days ago by
kacollier
▴ 30
0
votes
0
replies
116
views
Summary Statistics SNPs not found in Target data
SNP
plink
PRS
updated 6 days ago by
Ram
43k • written 6 days ago by
curious_butterfly
• 0
1
vote
3
replies
254
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 5 days ago by
GenoMax
142k • written 6 days ago by
cput
• 0
0
votes
0
replies
118
views
Annotate VCF via VEP for gnomAD annotation considering FILTER column
vep
vcf
gnomad
6 days ago by
asalimih
▴ 60
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 6 days ago by
Emanoelle
• 0 • written 5.8 years ago by
Elizabeth
▴ 30
0
votes
0
replies
106
views
Pathway analysis of Bacteria from denovo genome assembly
KEGG-KASS
WGS
Pathway
denovo
updated 6 days ago by
Ram
43k • written 6 days ago by
mathavanbioinfo
▴ 90
4
votes
7
replies
444
views
RNA seq analysis
DESeq
RNA-seq
3 hours ago by
Jacek
▴ 10
0
votes
2
replies
211
views
Exploring Diet Effects in Single-Cell RNA Sequencing
batch_effect
scRNA
seurat
integration
updated 6 days ago by
Adam
▴ 30 • written 7 days ago by
Darya
• 0
0
votes
5
replies
268
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 6 days ago by
Joe
21k • written 7 days ago by
Lemonhope
• 0
0
votes
0
replies
178
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
6 days ago by
Winter
• 0
0
votes
1
reply
158
views
PseudobulkExpression.Seurat error
Seurat
pseudo-bulk
updated 6 days ago by
Bastien Hervé
5.3k • written 7 days ago by
sooni
▴ 20
1
vote
3
replies
249
views
STAR aligner error
RNA-seq
STAR
slurm
updated 6 days ago by
Ram
43k • written 7 days ago by
M.
▴ 30
0
votes
2
replies
210
views
Correlating Bulk Differential Expression with quantitative
Differential-Expression
DESeq2
6 days ago by
Nicholas
• 0
0
votes
2
replies
224
views
Differentail gene expression results
differential
expression
gene
rna-seq
Deseq2
updated 6 days ago by
swbarnes2
14k • written 8 days ago by
ahmad.sajad4541
• 0
1
vote
9
replies
374
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 4 days ago by
i.sudbery
19k • written 8 days ago by
Assa Yeroslaviz
★ 1.8k
0
votes
4
replies
295
views
Correlation Analysis
statistics
methylation
NGS
expression
4 days ago by
Researcher
▴ 30
0
votes
0
replies
106
views
how to downlad slices of CRAM fro ICGC ARGO
icgc
samtools
cram
6 days ago by
Javier
• 0
1
vote
7
replies
525
views
Question regarding WGCNA
WGCNA
Network-construction
5 days ago by
deepak
• 0
2
votes
3
replies
325
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
updated 5 days ago by
bk11
★ 2.4k • written 10 days ago by
Yoosef
▴ 60
0
votes
2
replies
265
views
fastq screen aligner no specified.
BWA
Bowtie2
FastqScreen
updated 4 days ago by
GenoMax
142k • written 11 days ago by
Ximena
• 0
0
votes
2
replies
291
views
Extracting mutation status from MAF files - TCGA
TCGA
maf
mutation
updated 2 days ago by
Zhenyu Zhang
★ 1.2k • written 11 days ago by
yahn
• 0
3
votes
3
replies
258
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 1 day ago by
Ram
43k • written 15 days ago by
Adyasha
• 0
0
votes
0
replies
113
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 1 day ago by
Ram
43k • written 16 days ago by
atharvakarkare14
▴ 30
0
votes
0
replies
179
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
1 day ago by
Emily
▴ 20
1
vote
4
replies
404
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 4 days ago by
GenoMax
142k • written 27 days ago by
aniigodwinn
• 0
1
vote
0
replies
176
views
phasing tumor long-reads
nanopore
ONT
haplotag
phasing
tumor
5 days ago by
eebloom
▴ 80
1
vote
4
replies
493
views
cellranger error message
multiplexing
cellranger
updated 4 days ago by
Max
• 0 • written 3 months ago by
Alivia
▴ 10
0
votes
4
replies
3.6k
views
SNPEff database building error
SNP
updated 1 day ago by
Fungal genetics
• 0 • written 7.1 years ago by
ntyagi654
• 0
89 results • Page
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Recent Votes
Answer: Interpreting TCGA .rsem.genes.results and .rsem.genes.normalized_results files.
The Biostar Handbook. A bioinformatics e-book for beginners.
The Biostar Handbook. A bioinformatics e-book for beginners.
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
What is Deepvariant default filtering values ?
Answer: Filtering Multi-sample VCF file for all except one Genotype
Answer: Alphaphold 3 pLDDT coloring scheme in chimerax?
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142k
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Yes, i specifically ran the RNA-seq best practices, and no i have not taken RNA editing into account considering this is not mentioned in t…
Comment: Problem with Calling Variants from RNA-Seq data
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19k
Have you accounted for A>I RNA editing?
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**My references** Genome: https://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/references/GRCh38/GCA_000001405.15_GRCh38_no_al…
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This has formally been investiated by a reputable group here: https://academic.oup.com/nar/article/42/11/e95/1442937 IIRC they think tha…
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Thank you so much Matthias this is really helpful, I got insight from this. Have a nice day
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161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
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using vcfilterjdk: https://jvarkit.readthedocs.io/en/latest/VcfFilterJdk/ java -jar ${JVARKIT_DIST}/jvarkit.jar vcffilterjdk …
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I have one more question please. When reading the h5ad file at the very beginning, do I need to perform the usual scanpy normalization step…
Comment: Using Cutadapt to trim adapters from paired-end small RNA sequence data
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melissa.joubert
• 0
Thank you! This was going to be my next option - to simply use the Read_1 libraries for all samples. Can I ask about the second option you…
Comment: Filtering Multi-sample VCF file for all except one Genotype
by
schmince
• 0
Thanks, that was exactly what i needed
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