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509 results • Page
4 of 11
Sort: Votes
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Votes
Replies
0
votes
1
reply
212
views
Pattern of GC content across reads from fastp
multiqc
ddRAD
updated 22 days ago by
GenoMax
141k • written 23 days ago by
jberg
• 0
0
votes
3
replies
3.1k
views
Rna-seq for differential expression analysis
differential-expression
transcriptome
updated 13 days ago by
Ram
43k • written 9.0 years ago by
siddharth.patel.153
• 0
0
votes
2
replies
398
views
How can I solve this error?
metal
13 days ago by
22211020193
• 0
0
votes
2
replies
276
views
WGCNA
PCA
WGCNA
EIGENGENE
19 days ago by
rajasekargutha
▴ 60
0
votes
0
replies
652
views
METAL GWAS
allele-frequency
gwas
updated 29 days ago by
Ram
43k • written 2.4 years ago by
晗颖
• 0
0
votes
0
replies
162
views
Saccharomyces cerevisiae orthologs in plants
database
orthologs
27 days ago by
dec986
▴ 370
0
votes
2
replies
389
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
12 days ago by
Ashok
• 0
0
votes
0
replies
117
views
Blast2GO Fisher test
Fisher-test
Go-annotation
Blast2GO
updated 23 days ago by
Ram
43k • written 23 days ago by
BlackM
• 0
0
votes
0
replies
153
views
how to read graph_test output of monocle 3
monocle3
6 days ago by
synat.keam
▴ 100
0
votes
0
replies
125
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 7 days ago by
Ram
43k • written 7 days ago by
newuser2024
• 0
0
votes
0
replies
1.2k
views
Batch estimate using kBET
batch-effect
kbet
updated 13 days ago by
Ram
43k • written 4.1 years ago by
getanid123
• 0
0
votes
1
reply
169
views
RNA-seq bacteria contamination
RNA-seq
updated 9 days ago by
GenoMax
141k • written 9 days ago by
sh
• 0
0
votes
1
reply
823
views
Bulk RNAseq MACS Sort Quality Contamination
EdgeR
Batch-effect
RNA-Seq
updated 13 days ago by
Ram
43k • written 3.7 years ago by
jordan15
• 0
0
votes
2
replies
296
views
Are GeneExpression Subtype annotations removed from TCGA-GBM?
tcga-gbm
subtyping
tcga
updated 19 days ago by
Zhenyu Zhang
★ 1.2k • written 19 days ago by
Apollonia
• 0
0
votes
0
replies
199
views
Core SNP tree VS. concatenated core genome tree
phylogenetic
tree
SNP
18 days ago by
YiweiZhu
▴ 30
0
votes
0
replies
81
views
Differential accessibility using DiffBinf
diffbind
2 days ago by
Shloka
• 0
0
votes
2
replies
275
views
Calculating percentage of cells proliferating in single cell rna seq data
statistics
scRNA-seq
proliferation
14 days ago by
mropri
▴ 150
0
votes
5
replies
352
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 6 days ago by
GenoMax
141k • written 7 days ago by
Bertalan_Takacs
▴ 90
0
votes
4
replies
332
views
Questions about transfering wgs file to reference genome file
fasta
cram
genome
20 days ago by
me
• 0
0
votes
2
replies
305
views
Merging Outputs from plink --assoc and --hardy to Produce Table
PLINK
PANDAS
R
15 days ago by
Koketso
• 0
0
votes
1
reply
193
views
samflags to removes mapped concordantly >1 times
samtools
Bowtie2
Metagenome
updated 20 days ago by
jkbonfield
★ 1.2k • written 27 days ago by
pompam_5904
• 0
0
votes
8
replies
354
views
Error in cnetplot enrichplot package
R
updated 8 days ago by
Ram
43k • written 9 days ago by
Farhad
• 0
0
votes
1
reply
305
views
Sheep-Human ortholog mapping with BioMart and Orthogene/Gprofiler
ortholog
sheep
updated 23 days ago by
Shuang He
• 0 • written 3 months ago by
Michael
• 0
0
votes
0
replies
186
views
Protein stability analysis
mutation
analysis
19 days ago by
marco.barr
▴ 80
0
votes
0
replies
167
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 13 days ago by
Ram
43k • written 13 days ago by
bioinfo223
▴ 10
0
votes
0
replies
120
views
Installing SALSA and HIRise scafolding software
scafolding
SALSA
genome-assembly
HIRise
updated 20 days ago by
Ram
43k • written 20 days ago by
Lissa Cruz Saavedra
• 0
0
votes
0
replies
173
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
5 days ago by
simplitia
▴ 130
0
votes
0
replies
5
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
20 minutes ago by
meck
• 0
0
votes
1
reply
156
views
Differential Accessibility
DiffBind
updated 1 day ago by
Ram
43k • written 1 day ago by
Shloka
• 0
0
votes
0
replies
96
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
1 day ago by
Bine
▴ 60
0
votes
2
replies
259
views
Annovar using R package
Annovar
gnomAD
R
6 days ago by
DKA
▴ 40
0
votes
0
replies
97
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 9 days ago by
Ram
43k • written 9 days ago by
sansan_96
▴ 80
0
votes
0
replies
85
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
21 hours ago by
O.rka
▴ 710
0
votes
2
replies
164
views
How to update R on ubuntu
installation
update
R
apt-get
2 days ago by
Bosberg
▴ 50
0
votes
5
replies
2.1k
views
Batch effect correction & normalization after training/test split for gene expression data
RNA-seq
batch-effect
normalization
updated 14 days ago by
Ram
43k • written 21 months ago by
mmitra
▴ 60
0
votes
0
replies
97
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
9 days ago by
Enrique
• 0
0
votes
3
replies
231
views
KEGG Pathways
r
RNA-seq
updated 1 day ago by
Ram
43k • written 1 day ago by
Sudip
• 0
0
votes
1
reply
159
views
Geneious Prime (Consense Sequence)
Consense
Sequence
updated 21 days ago by
GenoMax
141k • written 21 days ago by
Reno
• 0
0
votes
0
replies
168
views
Problem with GATK FilterMutectCalls : using contamination table doesn' t change anything
vcf
contaminationtable
gatk
filtermutectcalls
genomics
26 days ago by
Samuel
▴ 20
0
votes
0
replies
595
views
Avoid genome circularization with Canu assembler
circularization
ONT
Canu
repetitive-regions
assembler
updated 26 days ago by
Ram
43k • written 2.9 years ago by
Maria
• 0
0
votes
0
replies
1.2k
views
Extra adjustment variables during batch effect correction
rna-seq
ComBat
batch-effect
updated 14 days ago by
Ram
43k • written 4.3 years ago by
n,n
▴ 360
0
votes
3
replies
1.1k
views
Batch effect for SNP array
sva
combat
batch-effect
SNP
updated 16 days ago by
Ram
43k • written 4.2 years ago by
Taylor95
▴ 10
0
votes
0
replies
113
views
Using limma in methylation EM-seq?
EM-seq
methylation
2 days ago by
Lluís R.
★ 1.2k
0
votes
0
replies
138
views
CIRIquant: ValueError: file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False
Ciriquant
updated 9 days ago by
Carlo Yague
8.7k • written 9 days ago by
Atul K.
• 0
0
votes
5
replies
347
views
Incongruencies in GT assignment by Freebayes
depth
freebayes
heterozygous
genotype
26 days ago by
virginia.baraja
• 0
0
votes
0
replies
308
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
7 days ago by
pramach1
▴ 40
0
votes
0
replies
114
views
What is more important for Structural Variant Calling? Recall or Precision?
structural-variants
merging
precision-recall
23 days ago by
Luke
• 0
0
votes
0
replies
91
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
1 day ago by
fanglujing
▴ 60
0
votes
3
replies
332
views
10x GEX and ADT data analysis in Seurat
Seurat
scRNA-seq
ADT
Cite-seq
GEX
updated 18 days ago by
ATpoint
82k • written 20 days ago by
gdfsnkfns
• 0
0
votes
0
replies
115
views
Synteny analysis
bacterial
synteny
genome
updated 2 days ago by
GenoMax
141k • written 2 days ago by
Namil
• 0
509 results • Page
4 of 11
Recent Votes
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141k
Can you classify the plasmids based on function (resistance genes they are carrying or some other criteria). Sizes above are indicating a w…
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Initially posted here https://support.bioconductor.org/p/9158036/ where I suggested to put code and data and noted that GEOquery returns ar…
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> when I put in the dataset, I am not able to run it for DEG analysis because system asks me to remove the first column which is of gene na…
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Thank you so much for your quick response, I have been searching scientific papers for about a week but have failed to come up with a reaso…
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by
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141k
> however I'm not sure this would be appropriate in my case as the plasmid sequences are obviously much more diverse and vary in size Can…
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I'm sure someone could find a more elegant solution using `stringr::str_wrap`, but for a one-time solution I did this: # my results of…
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You could edit the SAM file but I wonder if this problem is present in your original fastq data file so if not inconvenient do the alignmen…
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Thank you! how would I correct that?
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This is an open science community, not a place to write an email to Michael Love. Please address the entire community.
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All of them are G/C and A/T variants Some seem mismatches based on AF and some seem to need flipping. I guess I am confused, as in the Mich…
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