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1,000 results • Page
4 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
142
views
Are some metagenomes too complex for MAGs?
metagenomics
metagenome
MAGs
assembly
15 days ago by
Jacob
• 0
0
votes
1
reply
192
views
Differential Accessibility
DiffBind
updated 15 days ago by
Ram
43k • written 15 days ago by
Shloka
• 0
0
votes
3
replies
313
views
Landmark gene selection in L1000.
L1000
landmark-gene
cmap
updated 14 days ago by
GenoMax
142k • written 15 days ago by
kim
• 0
3
votes
7
replies
389
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
15 days ago by
salias
• 0
0
votes
0
replies
135
views
Using limma in methylation EM-seq?
EM-seq
methylation
15 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
131
views
Synteny analysis
bacterial
synteny
genome
updated 15 days ago by
GenoMax
142k • written 15 days ago by
Namil
• 0
0
votes
4
replies
290
views
Genbank File Format
gbkformat
14 days ago by
alenew.am
• 0
0
votes
0
replies
259
views
Assist me in determining whether the analysis process using the limma package has been executed correctly
limma
ArrayExpress
DifferentialExpression
GEOquery
15 days ago by
SSSJec
• 0
0
votes
3
replies
242
views
Software to separate reads from different individuals
software
development
nanopore
updated 15 days ago by
GenoMax
142k • written 15 days ago by
njornet
▴ 20
0
votes
2
replies
325
views
How to update R on ubuntu
installation
update
R
apt-get
15 days ago by
Bosberg
▴ 50
0
votes
0
replies
121
views
LEfSe
LEfSe
15 days ago by
benkosta
• 0
0
votes
0
replies
96
views
How should I handle read counts derived from SGSeq when I want to build DEXSeqDataSet object
DEXSeq
DEXSeqDataSet
SGSeq
15 days ago by
Sara
▴ 30
0
votes
2
replies
185
views
Longitudinal analysis of subpopulations: which approach is better?
differential-expression
DEG
model
15 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
111
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
2
replies
226
views
What should I consider as FASTA for dataset?
PDB
FASTA
15 days ago by
Nafi
• 0
0
votes
0
replies
603
views
Differential accessibility using DiffBinf
diffbind
16 days ago by
Shloka
• 0
0
votes
0
replies
106
views
vg call vs vg surject
vg
variation
graphs
updated 15 days ago by
GenoMax
142k • written 16 days ago by
aliraza3119
• 0
0
votes
1
reply
236
views
Finding batch and outlayers
Pca
updated 15 days ago by
christopher medway
▴ 460 • written 16 days ago by
Tigran
• 0
2
votes
2
replies
233
views
PDB related issue
rcsb
pdb
updated 16 days ago by
noodle
▴ 580 • written 16 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
270
views
Downloading full alignments from Pfam
pfam
9 days ago by
bef1
• 0
0
votes
0
replies
136
views
adjusting for confounders in LMER in R
confounders
LMER
R
updated 15 days ago by
dariober
14k • written 17 days ago by
rene.j.erhardt
▴ 20
1
vote
3
replies
369
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 16 days ago by
ATpoint
82k • written 17 days ago by
Francesco
▴ 10
0
votes
0
replies
153
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
17 days ago by
tnminh89
▴ 10
0
votes
0
replies
157
views
Filter low express genes in microarray data
microarray
17 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
18 days ago by
biocellbio
• 0
0
votes
0
replies
221
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
18 days ago by
HarperReed
• 0
1
vote
0
replies
173
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
190
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 18 days ago by
Ram
43k • written 19 days ago by
SineWave
• 0
0
votes
0
replies
190
views
RNA-seq: full length gene
RNA-seq
updated 18 days ago by
Ram
43k • written 19 days ago by
Nargis
• 0
0
votes
0
replies
170
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
19 days ago by
Edna
• 0
0
votes
0
replies
193
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
19 days ago by
simplitia
▴ 130
1
vote
1
reply
263
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 19 days ago by
ATpoint
82k • written 19 days ago by
AaronJaime
• 0
0
votes
0
replies
178
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
19 days ago by
rohitsatyam102
▴ 860
0
votes
0
replies
174
views
how to read graph_test output of monocle 3
monocle3
19 days ago by
synat.keam
▴ 100
0
votes
1
reply
530
views
GAPIT p-value significance threshold
GAPIT
p-value
GWAS
updated 19 days ago by
ginellegrenier
• 0 • written 5 months ago by
Clayton
• 0
0
votes
0
replies
172
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
19 days ago by
Aspire
▴ 330
0
votes
4
replies
408
views
Highest variable features in single cell data
single-cell
7 days ago by
carolofharvest
▴ 40
1
vote
3
replies
444
views
PCA plot
DESeq2
PCAplot
updated 16 days ago by
LauferVA
4.2k • written 20 days ago by
Aaliya
▴ 10
0
votes
0
replies
168
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
20 days ago by
4fzcgueyp5
• 0
0
votes
2
replies
307
views
Annovar using R package
Annovar
gnomAD
R
19 days ago by
DKA
▴ 40
0
votes
5
replies
435
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 19 days ago by
GenoMax
142k • written 20 days ago by
Bertalan_Takacs
▴ 90
0
votes
0
replies
166
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 20 days ago by
Ram
43k • written 20 days ago by
glaciya2018
• 0
0
votes
0
replies
328
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
20 days ago by
pramach1
▴ 40
0
votes
1
reply
202
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 20 days ago by
Sofia
• 0 • written 20 days ago by
mawigoj318
• 0
0
votes
0
replies
167
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
20 days ago by
salias
• 0
0
votes
5
replies
453
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 17 days ago by
Istvan Albert
100k • written 20 days ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
141
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 20 days ago by
Ram
43k • written 20 days ago by
newuser2024
• 0
1,000 results • Page
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Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
by
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Thank you! I will try searching for this more and see if it would fit my analysis purposes.
Comment: Benchmarking RNASeq Variant Calling Pipeline (Short Reads)
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Thank you so much for answering! I actually found some studies doing it the way you mentioned. I ran the GATK best practices pipeline on t…
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it is not!!
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Please accept your own answer to mark the post as solved.
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