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121,961 results • Page
188 of 2440
Sort: Rank
Rank
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Votes
Replies
0
votes
0
replies
540
views
Query about ALLHiC tutorial data format
allhic
paired-end
23 months ago by
mbeavitt
• 0
0
votes
2
replies
805
views
Obtain phred scores for each read
reads
phred
updated 23 months ago by
GenoMax
154k • written 23 months ago by
anuradharavi10
• 0
2
votes
1
reply
907
views
LD D-prime (D') calculation
R
LD
gaston
updated 23 months ago by
bk11
★ 3.1k • written 23 months ago by
Javier
▴ 10
2
votes
4
replies
1.3k
views
all(rownames(cts) %in% txdf$TXNAME) is FALSE in DTU Analysis in R
r
cts
bioconductor
dtu
deseq2
23 months ago by
dylannicoembros
• 0
5
votes
11
replies
2.0k
views
question regarding the labeling of points on graphs generated by ggplot in R
R
ggplot
updated 23 months ago by
rpolicastro
13k • written 23 months ago by
Francois Piumi
▴ 70
0
votes
0
replies
454
views
Multiple blast hits per transcript/peptide sequence.
RNA-Seq
Transcriptomics
Sequencing
Genomics
RNA
23 months ago by
4117837
• 0
0
votes
3
replies
984
views
Correct for different number of cells and individuals in single cell data analysis
scRNA-seq
updated 23 months ago by
Ram
45k • written 23 months ago by
Sara
▴ 280
0
votes
0
replies
580
views
ANGSD beagle generation returning empty file
ANGSD
beagle
updated 23 months ago by
Ram
45k • written 23 months ago by
DanielEB_fisk
▴ 20
0
votes
0
replies
717
views
Pearson correlation for RNAseq data - input formats
vst
Pearson-correlation
TPM
rlog
RNA-seq
updated 23 months ago by
Ram
45k • written 23 months ago by
Lada
▴ 40
0
votes
4
replies
1.0k
views
rpy2 package
rpy2
23 months ago by
scarlettpigany
• 0
7
votes
7
replies
1.9k
views
RNA-Seq: Comparing Expression between Cancer Grades
factors
rna-seq
grades
transcriptomics
23 months ago by
noodlejackson
▴ 40
0
votes
3
replies
776
views
overrepresented sequences in fastqc
fastqc
updated 23 months ago by
Ram
45k • written 23 months ago by
lonekaisar72
• 0
2
votes
3
replies
2.1k
views
slingshot analysis on PCA but visualization on UMAP
Pseudotime
TI
scRNAseq
slingshot
updated 23 months ago by
ATpoint
89k • written 23 months ago by
Tolga
▴ 30
0
votes
2
replies
980
views
circexplorer2 output
output
circexplorer
exonCount
fragment
circularRNA_known
23 months ago by
npont
• 0
0
votes
0
replies
403
views
Got an error when using chilin
chilin
23 months ago by
david
• 0
1
vote
6
replies
1.6k
views
Parsing XML file from dbGaP
XML
23 months ago by
CTLong
▴ 140
4
votes
4
replies
1.2k
views
HT-Seq and count matrix
HT-Seq
BAM
updated 23 months ago by
rpolicastro
13k • written 23 months ago by
qudrat.nii
▴ 40
5
votes
6
replies
3.8k
views
Get errors in loading packages/ calling functions in sc-seq data analysis
R
scater
macos
sctransform
updated 23 months ago by
Ram
45k • written 23 months ago by
yujunfhf
▴ 40
0
votes
2
replies
1.5k
views
XLOC gene id
gene-annotation
updated 23 months ago by
bk11
★ 3.1k • written 23 months ago by
AK828
• 0
0
votes
0
replies
743
views
Survival analysis in R keeps censoring figure with no censored data.
R
survival-analysis
censor
updated 23 months ago by
Ram
45k • written 23 months ago by
mgranada3
▴ 60
0
votes
2
replies
1.7k
views
PLINK Error: No valid entries in --score file
plink1.9
PRS
updated 23 months ago by
chrchang523
11k • written 23 months ago by
V.Zanin
• 0
0
votes
1
reply
589
views
Checking the quality of reads
meta-transcriptomics
quality-control
updated 23 months ago by
Ram
45k • written 23 months ago by
Petchimuthu
• 0
2
votes
2
replies
913
views
How to find the Allele Number (AN) of a variant not reported on gnomAD
gnomad
variant
updated 23 months ago by
Jeremy Leipzig
23k • written 23 months ago by
Lisa392
• 0
3
votes
6
replies
1.9k
views
Read multiple vcf files into R
R
vcf
23 months ago by
sousapaulo16
▴ 20
5
votes
1
reply
1.1k
views
How does tabix work?
annotation
tabix
ngs
vcf
updated 23 months ago by
Pierre Lindenbaum
166k • written 23 months ago by
captainlabman
▴ 20
3
votes
2
replies
1.1k
views
Protein Sequence from Entrez by Taxonomic_ID: Very slow
Efetch
entrez
python
protein
sequence
23 months ago by
The
▴ 180
4
votes
4
replies
1.9k
views
Combining GO and KEGG enrichments
Cytoscape
KEGG
network
RNASeq
GO
22 months ago by
David R
▴ 20
0
votes
1
reply
1.2k
views
HH-suite3 installation
hhsearch
hhsuite
pdbx
hhblits
updated 23 months ago by
Mensur Dlakic
★ 30k • written 23 months ago by
Mariana
• 0
1
vote
3
replies
848
views
How to find transcription factor in my gene set
transcription-factor
updated 23 months ago by
Ram
45k • written 23 months ago by
Ishak
• 0
2
votes
6
replies
1.5k
views
how to merge multiple files based on column header
R
statistics
biostatistics
updated 23 months ago by
iraun
6.2k • written 23 months ago by
Bioinfonext
▴ 480
0
votes
1
reply
751
views
Error: Bedtools Coverage execution KILLED
coverage
Bedtools
updated 23 months ago by
GenoMax
154k • written 23 months ago by
Smriti
▴ 40
0
votes
1
reply
722
views
GISTIC2 Index exceeds matrix dimensions.
GISTIC2
updated 23 months ago by
Ram
45k • written 23 months ago by
2362681467
• 0
1
vote
2
replies
1.1k
views
Whole transcriptome
whole-transcriptome
Human
23 months ago by
a.fathi
• 0
3
votes
5
replies
1.7k
views
Circular genome browser
genome-browser
circular-genome
updated 22 months ago by
cmdcolin
★ 4.3k • written 23 months ago by
giammafer
▴ 20
0
votes
1
reply
795
views
meta-analysis
meta-analysis
updated 23 months ago by
ATpoint
89k • written 23 months ago by
Nelo
▴ 20
0
votes
6
replies
1.6k
views
Calculating ROC50 in R
ROC
Protein
R
Homology
23 months ago by
siu
▴ 160
90
votes
48
replies
41k
views
29 follow
Tutorial:
Extract Total Non-Overlapping Exon Length Per Gene With Bioconductor
fpkm
rna-seq
bioconductor
updated 23 months ago by
Ram
45k • written 12.0 years ago by
Irsan
★ 7.8k
2
votes
3
replies
1.9k
views
Extracting exons using GenomicFeatures is different from manual extraction
R
GenomicFeatures
updated 23 months ago by
alejandrogzi
▴ 150 • written 2.3 years ago by
gernophil
▴ 130
0
votes
2
replies
1.2k
views
run-bwamem from BWAKIT does not work
Mapping
next-gen-sequencing
linux
alignment
updated 23 months ago by
Ram
45k • written 4.8 years ago by
laura.zalba
• 0
2
votes
1
reply
947
views
Beginner help with sequencing data
analysis
snv
nanopore
sequencing
updated 23 months ago by
GenoMax
154k • written 23 months ago by
camhabib
▴ 10
2
votes
1
reply
782
views
Can someone help me explain this part of a lecture regarding gene finding HMM's
HMM
gene-prediction
updated 23 months ago by
Ram
45k • written 23 months ago by
Mark
▴ 60
1
vote
1
reply
792
views
Issues while installing VG
vg
updated 23 months ago by
glenn.hickey
▴ 550 • written 23 months ago by
ghosal
• 0
1
vote
4
replies
4.0k
views
Running AUCell on integrated scRNAseq data
scRNA-seq
AUCell
SCENIC
Seurat
updated 23 months ago by
jv
★ 1.9k • written 2.6 years ago by
Alex Gibbs
▴ 90
3
votes
0
replies
1.4k
views
News:
gnomAD v4 released
gnomad
23 months ago by
Pierre Lindenbaum
166k
0
votes
0
replies
609
views
News:
Course - Introduction to Machine Learning in R
R
Statistical-Learning
Omics
Machine-Learning
updated 23 months ago by
Ram
45k • written 23 months ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
849
views
Extracting the near amino acid number from an essential splice site variant
Genomics
Genetics
updated 23 months ago by
Ram
45k • written 23 months ago by
jafisep314
• 0
1
vote
7
replies
2.0k
views
Samtools filtering based on PNEXT
CRAM
filtering
samtools
SAM
BAM
updated 23 months ago by
Istvan Albert
103k • written 23 months ago by
predeus
★ 2.1k
1
vote
3
replies
4.4k
views
Unable to resolve host address
ubuntu
ftp
updated 23 months ago by
Istvan Albert
103k • written 23 months ago by
Meghna
▴ 10
4
votes
3
replies
1.2k
views
Printing quality scores from fastq file
fastq
updated 23 months ago by
rpolicastro
13k • written 23 months ago by
truecorder
• 0
0
votes
0
replies
538
views
Large qiime2 table (107 gb) to phyloseq
phyloseq-reg
meta-analysis
updated 23 months ago by
Ram
45k • written 23 months ago by
bala
• 0
121,961 results • Page
188 of 2440
Recent Votes
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Answer: Differences between published differential gene expression results and own analy
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Answer: If TPM is not comparable across cohorts, can it be used as the input for ML mode
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sra-explorer : find SRA and FastQ download URLs in a couple of clicks
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
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Comment: Errors with RSEM/bowtie2
by
GenoMax
154k
That is good confirmation. Bacl to the error message. > I don't know how to fix this, given that I already did the trimming steps. DId yo…
Comment: Differences between published differential gene expression results and own analy
by
dsull
★ 7.7k
Honestly, those things shouldn't result in a considerable discrepancy. The largest difference will come from the post-processing & analysi…
Answer: Differences between published differential gene expression results and own analy
by
Ales
▴ 50
I second the comment about comparing the top 100 genes - if you see vastly different results, I would lean closer to examining protocols th…
Answer: Help interpreting BLASTn results and phylogenetic tree for genetics practical
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★ 30k
I think what you are asking involves too much work for anyone to explain it in granular detail. But who knows, maybe there is a good soul o…
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yura.grabovska
▴ 830
When you say vastly different, what do you mean exactly? Does your top 100 up/down not match theirs at all?
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8.0k
Have a look at tools like SnpEff or Ensembl VEP. Perhaps your bacterial sp is included.
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by
Olivia
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Yes, I already made the transcriptome with these tools, and the CD-HIT-EST fasta file is the transcript file that I am using for RSEM. Then…
Comment: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
by
Guilherme
• 0
Oh, ok. It seems like NCBI stores the files in SRA format (thus needing conversion and database lookups by sra toolkit tools) and EBI store…
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3.9k
On the DMR tutorial page, they retrieve Human CpG Islands from the UCSC Table Browser. You can do the same thing for Mouse CpG Islands. Hav…
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Yes but the problem is that biological knowledge is never fully encompasing. While I can say that a cell expressing CD45 alongside astrocyt…
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Human genome, ideally hg38
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Hello, I am wondering if you got access to the software or not. I am looking to use Newbler for my research and I contacted Roche too but t…
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154k
> I have previously run Trinity with the Trimmomatic step as well as CD-HIT-EST. I assume you did the above to generate the transcriptome,…
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Got it https://kb.10xgenomics.com/hc/en-us/articles/115004506263-What-is-a-barcode-inclusion-list-formerly-barcode-whitelist
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by
vernonlim98
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Thanks for the advice. Am still new to RNA seq and R programming in general, and will just do the analysis by myself.
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