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1,000 results • Page
4 of 20
Sort: Rank
Rank
Views
Votes
Replies
1
vote
3
replies
321
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 15 days ago by
GenoMax
142k • written 15 days ago by
jeffrey.maurer.informatics
• 0
0
votes
2
replies
252
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
8 days ago by
Ahiad Chen Zion
• 0
0
votes
0
replies
136
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 15 days ago by
Ram
43k • written 15 days ago by
Alexandros
• 0
0
votes
1
reply
185
views
unable to get feature count results
featureCounts
updated 15 days ago by
Ram
43k • written 15 days ago by
Ravita
• 0
0
votes
3
replies
310
views
KEGG Pathways
r
RNA-seq
updated 15 days ago by
Ram
43k • written 15 days ago by
Sudip
• 0
0
votes
0
replies
149
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
15 days ago by
Bine
▴ 60
1
vote
2
replies
240
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 15 days ago by
Ram
43k • written 15 days ago by
Ravita
• 0
3
votes
3
replies
261
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 2 days ago by
Ram
43k • written 15 days ago by
Adyasha
• 0
0
votes
0
replies
120
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
15 days ago by
fanglujing
▴ 60
0
votes
0
replies
144
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
15 days ago by
Jacob
• 0
0
votes
1
reply
194
views
Differential Accessibility
DiffBind
updated 16 days ago by
Ram
43k • written 16 days ago by
Shloka
• 0
0
votes
3
replies
313
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 15 days ago by
GenoMax
142k • written 16 days ago by
kim
• 0
3
votes
7
replies
392
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
16 days ago by
salias
• 0
0
votes
0
replies
137
views
Using limma in methylation EM-seq?
EM-seq
methylation
16 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
131
views
Synteny analysis
bacterial
synteny
genome
updated 16 days ago by
GenoMax
142k • written 16 days ago by
Namil
• 0
0
votes
4
replies
291
views
Genbank File Format
gbkformat
15 days ago by
alenew.am
• 0
0
votes
0
replies
261
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
16 days ago by
SSSJec
• 0
0
votes
3
replies
242
views
Software to separate reads from different individuals
software
development
nanopore
updated 16 days ago by
GenoMax
142k • written 16 days ago by
njornet
▴ 20
0
votes
2
replies
339
views
How to update R on ubuntu
installation
update
R
apt-get
16 days ago by
Bosberg
▴ 50
0
votes
0
replies
121
views
LEfSe
LEfSe
16 days ago by
benkosta
• 0
0
votes
0
replies
97
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
16 days ago by
Sara
▴ 30
0
votes
2
replies
187
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
16 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
116
views
Comparing peptide sequences with MS/MS peptide data using MaxQuant
Transcriptomics
Mass-spectrometry
Proteins
updated 2 days ago by
Ram
43k • written 16 days ago by
atharvakarkare14
▴ 30
0
votes
2
replies
231
views
What should I consider as FASTA for dataset?
PDB
FASTA
16 days ago by
Nafi
• 0
0
votes
0
replies
607
views
Differential accessibility using DiffBinf
diffbind
16 days ago by
Shloka
• 0
0
votes
0
replies
111
views
vg call vs vg surject
vg
variation
graphs
updated 16 days ago by
GenoMax
142k • written 16 days ago by
aliraza3119
• 0
0
votes
1
reply
237
views
Finding batch and outlayers
Pca
updated 16 days ago by
christopher medway
▴ 460 • written 16 days ago by
Tigran
• 0
2
votes
2
replies
237
views
PDB related issue
rcsb
pdb
updated 17 days ago by
noodle
▴ 580 • written 17 days ago by
Nafi
• 0
0
votes
9
replies
2.6k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 16 days ago by
Ram
43k • written 8 months ago by
Gio
• 0
1
vote
2
replies
273
views
Downloading full alignments from Pfam
pfam
10 days ago by
bef1
• 0
0
votes
0
replies
138
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 16 days ago by
dariober
14k • written 17 days ago by
rene.j.erhardt
▴ 20
1
vote
3
replies
372
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 17 days ago by
ATpoint
82k • written 18 days ago by
Francesco
▴ 10
0
votes
0
replies
154
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
18 days ago by
tnminh89
▴ 10
0
votes
0
replies
157
views
Filter low express genes in microarray data
microarray
18 days ago by
Chris
▴ 280
0
votes
0
replies
585
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
19 days ago by
biocellbio
• 0
0
votes
0
replies
224
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
19 days ago by
HarperReed
• 0
1
vote
0
replies
175
views
Simulation of label-free bottom-up proteomics expression dataset
label-free
bottom-up
lc-ms
proteomics
19 days ago by
KABILAN
▴ 70
0
votes
0
replies
191
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 19 days ago by
Ram
43k • written 19 days ago by
SineWave
• 0
0
votes
0
replies
192
views
RNA-seq: full length gene
RNA-seq
updated 19 days ago by
Ram
43k • written 19 days ago by
Nargis
• 0
0
votes
0
replies
171
views
Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
19 days ago by
turcoa1
• 0
0
votes
0
replies
183
views
Designing single-stable RNA molecules
structure
RNA
20 days ago by
Edna
• 0
0
votes
0
replies
195
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
20 days ago by
simplitia
▴ 130
1
vote
1
reply
264
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 20 days ago by
ATpoint
82k • written 20 days ago by
AaronJaime
• 0
0
votes
0
replies
180
views
How to calculate correlation coefficient for chipseq?
chipseq
bigwigsummary
deeptools
correlation
1 day ago by
Emily
▴ 20
1
vote
0
replies
192
views
How to calculate reliable Ka/Ks or dN/dS ratio for genes of interest from VCF file
dnds
kaks
VCF
20 days ago by
rohitsatyam102
▴ 860
0
votes
0
replies
174
views
how to read graph_test output of monocle 3
monocle3
20 days ago by
synat.keam
▴ 100
0
votes
1
reply
531
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 20 days ago by
ginellegrenier
• 0 • written 5 months ago by
Clayton
• 0
0
votes
0
replies
174
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
20 days ago by
Aspire
▴ 330
0
votes
4
replies
413
views
Highest variable features in single cell data
single-cell
8 days ago by
carolofharvest
▴ 40
1
vote
3
replies
447
views
PCA plot
DESeq2
PCAplot
updated 17 days ago by
LauferVA
4.2k • written 20 days ago by
Aaliya
▴ 10
1,000 results • Page
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Recent Replies
Comment: Inquiry about deseq2 transformation
by
Chen
• 0
that's helpful, thanks :)
Comment: bbmerge (bbmap) ~ error with insert size file output
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20k
Ah, this is a little embarrassing; those are the vectors for the neural network. I overloaded a field that was being used for the insert s…
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Thanks - I corrected it. It doesn't seem to annotate. I converted to binary after which is what is shown below. It is not the output I want…
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These are valid questions. Does your code address the concerns you've raised? From what I understand, FilterVcf is primarily designed for h…
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Found the answer here!! https://github.com/Illumina/strelka/blob/master/docs/userGuide/README.md#somatic Although this leads to a str…
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43k
That's not a valid reason to delete the post. If that information was sensitive, posting it here was a mistake in the first place. I don't …
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▴ 120
Hi, regardless of how you generated the data whether with DESeq2 or other pipeline, your differential expression matrix can be used as inpu…
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161k
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Would Parkinson's be expected to have an effect on blood cells? Neurons, sure, but blood cells?
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Thank you very much, you've helped me a lot. Could you suggest a book or article that offers a complete explanation of these processes?
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▴ 10
Thank you. I can't try a completely new tool but I will keep your command for future use. Do you think my commands were correct? For exampl…
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Thanks. Thats work
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Whether N -> A/T/G/C represents a variant is heavily dependent on the tool itself, and I know most tools don't. Since you don't see it in y…
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The code seems correct at first glance... How did you generate the data in the Excel file? Have you checked the exon annotations? You could…
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