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121,936 results • Page
128 of 2439
Sort: Rank
Rank
Views
Votes
Replies
3
votes
4
replies
3.0k
views
Genome completeness and contamination: CheckM vs CheckM2
genome-completeness
contamination
18 months ago by
beacamara
• 0
8
votes
3
replies
1.3k
views
How to extract rows with specific values in R for all the columns?
R
18 months ago by
Lakshmi
▴ 20
0
votes
0
replies
507
views
Normalization approaches of RNAseq data before WGCNA
DEseq2
voom
WGCNA
18 months ago by
gimenagomez
• 0
1
vote
2
replies
1.2k
views
STACKS PCR duplicate removal
PCR
VCF
STACKS
RAD-seq
18 months ago by
maxrwjones
▴ 60
0
votes
2
replies
1.4k
views
How to fasten FTP file type download speed
SRA
FTP
GEO
NCBI
18 months ago by
Aaliya
• 0
0
votes
1
reply
627
views
Input file of Haploview
Haploview
TagSNP
updated 18 months ago by
LauferVA
4.8k • written 18 months ago by
Đạt
• 0
0
votes
6
replies
1.5k
views
Error in running Mauve alignner in Ubuntu 20.04
java
linux
aligner
mauve
17 months ago by
marongiu.luigi
▴ 760
0
votes
2
replies
610
views
RNA-Seq isoforms identification
RNA-seq
updated 18 months ago by
Andres
▴ 20 • written 18 months ago by
latita.atun
• 0
2
votes
2
replies
760
views
Removing adapters in all the RNAseq samples regardless if they have or not, is it correct?
fastqc
trimming
adapters
cutadapt
RNAseq
updated 18 months ago by
dsull
★ 7.7k • written 18 months ago by
ev97
▴ 40
0
votes
0
replies
571
views
ChIPseeker annotation on gene or transcript level
ChIPseeker
annotation
ChIP-seq
18 months ago by
zea
▴ 10
1
vote
0
replies
843
views
Herald:
The Biostar Herald for Wednesday, April 03, 2024
herald
18 months ago by
Biostar
3.6k
0
votes
0
replies
360
views
Integration of scRNA, a conceptual doubt
Seurat
scRNA
Integration
18 months ago by
edoardofilippi1998
• 0
0
votes
0
replies
463
views
Diffbind and DESeq2 comparison for differential sites
diffbind
deseq2
updated 17 months ago by
Ram
45k • written 18 months ago by
Ankit
▴ 520
0
votes
0
replies
408
views
News:
Online course: Food Traceability Using Genomic Tools
Nanopore
Genomic-Tools
Illumina
Food-Traceability
updated 18 months ago by
Ram
45k • written 18 months ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
1.4k
views
What does the part "mature miRBase miRNAs not detected by miRDeep2" actually mean in a miRDeep2 analysis? Should those hits be included in results?
miRDeep2
miRNA
updated 18 months ago by
binaryCode
▴ 10 • written 3.2 years ago by
Debasish
• 0
3
votes
3
replies
1.3k
views
How to run BRIG on Ubuntu 22?
BRIG
Ubuntu
updated 18 months ago by
Reno
• 0 • written 20 months ago by
marongiu.luigi
▴ 760
0
votes
2
replies
686
views
utr sequence retrieval from UCSC
UTR
SEQUENCING
UCSC
GENOME
updated 18 months ago by
GenoMax
154k • written 18 months ago by
kim
▴ 70
0
votes
0
replies
342
views
NicheNet cell-cell communication analysis outcome
nichenet
scRNA-seq
18 months ago by
QX
▴ 80
1
vote
9
replies
2.6k
views
Can index hopping lead to more reads in samples?
index-hopping
NovoSeq
illumina
NGS
Seqeucning
18 months ago by
Assa Yeroslaviz
★ 1.9k
0
votes
0
replies
491
views
When to merge ChIP-Seq data?
HOMER
ChIP-seq
macs3
updated 18 months ago by
Ram
45k • written 18 months ago by
Thomas
• 0
1
vote
2
replies
961
views
minimac3 download - Connection timed out
GWAS
minimac3
imputation
18 months ago by
SeoG
▴ 10
21
votes
8
replies
16k
views
9 follow
MAF vs VAF
sequencing
updated 18 months ago by
AshleeThomson
▴ 130 • written 7.5 years ago by
lauren.wahyudi
▴ 70
0
votes
1
reply
658
views
mirbase gff and mature fastas for custom STAR index genome?
mirbase
indexing
star
genome
18 months ago by
RNAseqer
▴ 280
1
vote
1
reply
997
views
naming the UMAP cluster
Seurat
scanpy
UMAP
updated 18 months ago by
Hamid Ghaedi
3.3k • written 18 months ago by
orzrzlyo
▴ 20
0
votes
0
replies
362
views
WGCNA modulePreservation on three expression sets
WGCNA
18 months ago by
CTLong
▴ 140
0
votes
3
replies
1.0k
views
Multiple iterations of sorted bam output files with picard SortSam
picard
updated 18 months ago by
GenoMax
154k • written 18 months ago by
shpak.max
▴ 60
3
votes
2
replies
1.8k
views
Issues Using DMRcate and rmSNPandCH
DMRcate
R
updated 18 months ago by
t.peters
▴ 20 • written 2.6 years ago by
Indira
▴ 10
4
votes
4
replies
2.0k
views
Bowtie2 mapping is slow
metagenomics
bowtie2
mapping
read
updated 17 months ago by
colindaven
8.0k • written 18 months ago by
Md Moinuddin
• 0
0
votes
1
reply
623
views
The order of those tied genes will be arbitrary, which may produce unexpected results.
fgsea
18 months ago by
Gordon
• 0
0
votes
0
replies
623
views
Problem in merging multiple samples VCF file obtained from Structural variant caller Lumpy
SV
Variant-calling
VCF
updated 18 months ago by
Ram
45k • written 18 months ago by
sardana.thakur.prachi
• 0
0
votes
1
reply
859
views
How can we remove a sub-pathway from a parent pathway in Reactome Database?
pathway
reactome
updated 18 months ago by
NancyTLi
▴ 20 • written 3.0 years ago by
Muiz Khan
• 0
0
votes
0
replies
390
views
How to extract BED-format annotation tracks for the newly inserted segments
bed
mauve
updated 18 months ago by
Ram
45k • written 18 months ago by
FZ
• 0
0
votes
0
replies
427
views
Variant Calling for one gene - Stage of filtering
gatk
picard
variant-calling
updated 18 months ago by
Ram
45k • written 18 months ago by
andrebolerbarros
• 0
2
votes
2
replies
721
views
Is refSeq table DNA or RNA coordinate?
RefSeq
UCSC
NCBI
updated 18 months ago by
GenoMax
154k • written 18 months ago by
Alewa
▴ 190
0
votes
3
replies
960
views
HISAT2 alignment issue
RNAseq
Alignment
HISAT2
updated 18 months ago by
Ram
45k • written 18 months ago by
eleven11
• 0
0
votes
0
replies
381
views
How to improve batch correction
ruvg
batch-correction
rna-seq
updated 18 months ago by
Ram
45k • written 18 months ago by
Shaimaa Gamal
▴ 10
0
votes
0
replies
344
views
WGCNA: analysis of complex trait associations with regression
WGCNA
18 months ago by
w.cookson
• 0
0
votes
7
replies
1.7k
views
How to build ribosomal interval files to use in CollectRnaSeqMetrics for hg38.p14
hg38.p14
ribosomal-intervals
updated 16 months ago by
noodle
▴ 650 • written 18 months ago by
naaj
• 0
1
vote
7
replies
4.7k
views
Installing Cell Ranger
cellranger
18 months ago by
gdfsnkfns
• 0
0
votes
7
replies
9.5k
views
6 follow
fastq-dump: command not found, what is wrong?
assembly
sratoolkit
genomics
updated 5 months ago by
ATpoint
89k • written 4.1 years ago by
BioinfoNoob6
• 0
5
votes
7
replies
2.0k
views
UK biobank versus Genomics England
WGS
DRAGEN
GenomicsEngland
UK-BRAP
vcf
written 20 months ago by
zizigolu
★ 4.4k
4
votes
9
replies
1.6k
views
variant calling
variant-calling
updated 18 months ago by
Ram
45k • written 18 months ago by
dalibenam64
• 0
3
votes
3
replies
1.1k
views
TMM normalization with DESeq2
RNA-seq
DESeq2
updated 18 months ago by
Ram
45k • written 18 months ago by
marco.barr
▴ 180
0
votes
0
replies
539
views
What does it means, when 2-direction perturbed pathways are identified in the gage enrichment analysis?
r
pathway
go-enrichment
gage
18 months ago by
Assa Yeroslaviz
★ 1.9k
1
vote
1
reply
492
views
How to use the Rfoot output to eliminated nonribosomal sequence reads
profiling
ribosome
ribo-seq
Rfoot
18 months ago by
nonaddldy
▴ 10
1
vote
1
reply
916
views
Batch effect issue in RNA velocity analysis
RNA-velocity
integration
updated 18 months ago by
ATpoint
89k • written 18 months ago by
sarahmanderni
▴ 130
2
votes
2
replies
876
views
Processing and calling SVs from PacBio data
PacBio
long-read
variant-calling
updated 18 months ago by
Ram
45k • written 18 months ago by
adarsh
▴ 60
0
votes
4
replies
1.2k
views
Compute bootstrap values on consensus tree
phylogeny
tree
raxml
17 months ago by
pablo
▴ 350
2
votes
1
reply
516
views
multiple reference sequences
freebayes
updated 18 months ago by
GenoMax
154k • written 18 months ago by
emilydolivo97
▴ 10
1
vote
1
reply
1.3k
views
Can't download txdbmaker package
ASpli
package
txdbmaker
R
updated 18 months ago by
ATpoint
89k • written 18 months ago by
Grace
• 0
121,936 results • Page
128 of 2439
Recent Votes
Answer: Linear regression vs DESeq2 models for DEG analysis
Answer: how to explain the sample size discrepancy in UCSC Xena
Answer: Linear regression vs DESeq2 models for DEG analysis
C: how to format the featurecounts output ?
C: how to format the featurecounts output ?
What happened to biomart.org
Answer: allele frequency in VCF
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Recent Replies
Answer: Linear regression vs DESeq2 models for DEG analysis
by
FioG
• 0
@swbarnes2 Thank you for your response! I am new to RNA seq analysis and was originally recommended to use the LM method following cqn and …
Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
curious
▴ 890
Thank you, the adapter sequences are specified as CTGTCTCTTATACACATCT+ATGTGTATAAGAGACA is the SampleSheet.csv file from the sequencing run.…
Comment: how to explain the sample size discrepancy in UCSC Xena
by
nuorain
▴ 40
Thank you very much.
Answer: how to explain the sample size discrepancy in UCSC Xena
by
i.sudbery
22k
Because there wasn't RNA-seq analysis performed for every sample in TCGA?
Answer: Linear regression vs DESeq2 models for DEG analysis
by
i.sudbery
22k
There are two main problems with using linear models for read-count based analyses. Firstly, linear models assume a normal distribution…
Comment: real time PCR data analysis
by
ATpoint
89k
I cannot guide on GraphPad. It's commercial software so better contact their support.
Answer: Linear regression vs DESeq2 models for DEG analysis
by
swbarnes2
15k
DE genes in bulk RNASeq is what DESeq2 was made for, so why wouldn't you use it? RPKM is not an appropriate normalization method here. M…
Comment: What happened to biomart.org
by
Jeremy Leipzig
23k
same with geuvadis.org
Comment: real time PCR data analysis
by
Gordon Smyth
★ 8.3k
Are you doing qPCR for one gene or for several genes?
Comment: protein interaction prediction
by
Fatemeh
▴ 50
Thanks very much for your help. I need to try it.
Comment: real time PCR data analysis
by
Fatemeh
▴ 50
Thanks a lot for the link. The problem is that with this repeated measures, if you put the data from different donors in different rows, fo…
Answer: What happened to biomart.org
by
GenoMax
154k
Looks like EBI let the domain registration expire. The domain was picked up by someone else and turned into the site OP mentions. There use…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
GenoMax
154k
> I want to reconstruct the assembly using the pacbio reads only. Is there a paper associated with this data? If the original publication/…
Comment: real time PCR data analysis
by
ATpoint
89k
I think the keyword to go after here is repeated measures https://www.graphpad.com/guides/prism/latest/statistics/repeated_measures.htm
Answer: What happened to biomart.org
by
ATpoint
89k
Maybe I am missing sth because I've never used the website but only the API and R interface, but I think the website has always been https:…
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