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1,019 results • Page
2 of 21
Sort: Rank
Rank
Views
Votes
Replies
0
votes
1
reply
503
views
Loss of 'var' using concatenation of AnnData objects
Scanpy
AnnData
updated 2 days ago by
Hugo
• 0 • written 4 months ago by
Rachel
• 0
0
votes
1
reply
141
views
Provean help
variant
Provean
updated 2 days ago by
Mensur Dlakic
★ 27k • written 2 days ago by
Arun Sai Kumar
• 0
1
vote
1
reply
157
views
Download eQTL data of one specific gene for all tissues from GTEx
eQTL
GTEx
updated 2 days ago by
bk11
★ 2.4k • written 2 days ago by
Jeol
▴ 20
1
vote
1
reply
164
views
Super ehancers
enhancers
updated 2 days ago by
jared.andrews07
★ 16k • written 2 days ago by
Oburah
• 0
0
votes
6
replies
273
views
How does gene length effect the number of reads mapped
RNA-seq
CPM
sequencing
updated 1 day ago by
dsull
★ 6.0k • written 2 days ago by
Chen
• 0
5
votes
5
replies
252
views
Problem with data downloaded from Short Reads Archive (SRA)
SRA
DADA2
metabarcoding
updated 2 days ago by
atharvakarkare14
▴ 30 • written 2 days ago by
Begonia_pavonina
▴ 150
1
vote
7
replies
428
views
Downsampling long-read BAM files
nanopore
BAM
QC
ONT
downsampling
1 day ago by
eebloom
▴ 80
3
votes
3
replies
300
views
What analysis suitable to identify similarly expressed genes between two samples (treated vs untreated). Contrary to DGE analysis,
Gene-Expression
RNA
NOISeq
DGE
updated 1 day ago by
ATpoint
82k • written 2 days ago by
alifafiq1
• 0
0
votes
0
replies
95
views
Use of annotation of integrated Seurat object in single sample
Seurat
2 days ago by
Bine
▴ 60
0
votes
0
replies
100
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding
Programming
R
updated 2 days ago by
Ram
43k • written 2 days ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
216
views
Subsetting and merging back Seurat Object brings different results
Seurat
2 days ago by
Bine
▴ 60
0
votes
0
replies
127
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
NGS
Genomics
Post-doc
R-loops
updated 2 days ago by
Ram
43k • written 2 days ago by
4r-rtg
• 0
1
vote
1
reply
133
views
Discrepancy in read counts from fastq
downsampling
fastq
updated 2 days ago by
Ram
43k • written 2 days ago by
marco.barr
▴ 90
0
votes
0
replies
83
views
edgeR contrasts for analysis of reciprocal hybrid crosses - averaging, pooling, and comparing groups
edgeR
2 days ago by
Rhiannon
• 0
0
votes
0
replies
94
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
2 days ago by
Vijith
▴ 30
9
votes
10
replies
469
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 2 days ago by
Zamin Iqbal
▴ 20 • written 3 days ago by
nicole.kavanagh
• 0
0
votes
1
reply
270
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 2 days ago by
Scooter
▴ 280 • written 9 days ago by
avocado123
• 0
0
votes
0
replies
94
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
2 days ago by
James
▴ 10
0
votes
1
reply
583
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 2 days ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
1
vote
3
replies
219
views
Odd alignment question/finding
Alignment
updated 1 day ago by
barslmn
★ 2.1k • written 2 days ago by
poordumbsillyidiot
• 0
0
votes
1
reply
201
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 2 days ago by
GenoMax
142k • written 3 days ago by
mgranada3
▴ 30
0
votes
0
replies
94
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
3 days ago by
meck
• 0
0
votes
0
replies
123
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 3 days ago by
Ram
43k • written 3 days ago by
Oscar
▴ 10
0
votes
7
replies
518
views
Post-imputation plot
michigan-imputation-server
quality-control
updated 1 day ago by
LChart
3.9k • written 5 days ago by
kl
▴ 10
0
votes
1
reply
215
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 3 days ago by
Adam
▴ 30 • written 4 days ago by
J
• 0
1
vote
3
replies
294
views
DESeq2 processing problems
deseq2
R
updated 3 days ago by
ATpoint
82k • written 3 days ago by
jagdish7921
• 0
0
votes
1
reply
775
views
cnetplot category names are too long
clusterprofiler
RNA-Seq
enrichplot
cnetplot
updated 2 days ago by
Ram
43k • written 2.7 years ago by
carov
• 0
0
votes
1
reply
142
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 3 days ago by
Ram
43k • written 3 days ago by
ernestine.kubi
• 0
0
votes
0
replies
103
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
3 days ago by
VITALA
• 0
1
vote
2
replies
243
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
2 days ago by
rianna.collins
• 0
0
votes
1
reply
179
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 3 days ago by
i.sudbery
19k • written 4 days ago by
Edmond
• 0
0
votes
0
replies
142
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
4 days ago by
O.rka
▴ 710
0
votes
1
reply
610
views
after selecting specific GO terms to plot, cneplot is not showing any color for genes, GO terms and only showing lines without nodes.
cneplot
updated 3 days ago by
Ram
43k • written 4 days ago by
Dr Huma Naz
• 0
2
votes
2
replies
266
views
p-value in CIBERSORT
CIBERSORT
p-value
3 days ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
363
views
Telescope issue
Telescope
RNA-seq
updated 3 days ago by
GenoMax
142k • written 4 days ago by
eleven11
• 0
5
votes
6
replies
518
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 4 days ago by
me
▴ 760 • written 5 days ago by
Mariana
▴ 40
1
vote
1
reply
230
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 4 days ago by
Ram
43k • written 4 days ago by
Jonathan Yoou
▴ 60
1
vote
2
replies
285
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
3 days ago by
Nafi
• 0
1
vote
3
replies
276
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 4 days ago by
GenoMax
142k • written 4 days ago by
jeffrey.maurer.informatics
• 0
0
votes
2
replies
224
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
updated 4 days ago by
GenoMax
142k • written 4 days ago by
Dora
▴ 10
0
votes
0
replies
161
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 4 days ago by
Ram
43k • written 4 days ago by
Chakri
• 0
0
votes
1
reply
176
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
updated 3 days ago by
Adam
▴ 30 • written 4 days ago by
Ahiad Chen Zion
• 0
1
vote
5
replies
317
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
1 day ago by
Riccardo
▴ 10
0
votes
0
replies
129
views
barcode of TCR-sequencing
barcode
4 days ago by
yueli7
▴ 250
0
votes
0
replies
126
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 4 days ago by
Ram
43k • written 4 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
125
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 4 days ago by
Ram
43k • written 4 days ago by
Alexandros
• 0
0
votes
1
reply
168
views
unable to get feature count results
featureCounts
updated 4 days ago by
Ram
43k • written 4 days ago by
Ravita
• 0
0
votes
3
replies
279
views
KEGG Pathways
r
RNA-seq
updated 4 days ago by
Ram
43k • written 4 days ago by
Sudip
• 0
4
votes
6
replies
3.8k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 4 days ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
132
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
4 days ago by
Bine
▴ 60
1,019 results • Page
2 of 21
Recent Votes
Comment: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: Design matrix Differential expression analysis
A: PCA plot from read count matrix from RNA-Seq
A: PCA plot from read count matrix from RNA-Seq
Answer: Design matrix Differential expression analysis
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psm
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Medhat
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Recent Replies
Comment: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
> When is it recommended to use the design <- cbind(Intercept=1,Group=c(-1,-1,-1,1,1,1)) It is not recommended. No such code appears anywh…
Comment: GRCh38.gmap file
by
lorena9132
▴ 10
Hi Mathew, The .txt files provided in the link differ from the .gmap files, but after several attempts, I succeeded in generating the .gma…
Answer: GRCh38.gmap file
by
Mathew
▴ 20
Hi, I have spent some time searching for a GRCH38 map file for you. I have found a certain publication that uses a hg38 genetic map file…
Answer: Association study using SNP data
by
Mathew
▴ 20
Hi, You asked three questions so I will attempt to help the best I can **What should be the optimal GC score cutoff** It sounds li…
Comment: Design matrix Differential expression analysis
by
SHN
▴ 40
Thank you for your explanation. I am working on the cell lines and I am investigating the effect of the treatment on the expression level, …
Answer: Issues with Mixture file when using CIBERSORTx
by
vjanve
• 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction
by
Expert
▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction
by
ATpoint
82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error
by
Ruqaiya
• 0
This the tool still problematic?
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
Answer: Segmentation error while using a tool
by
Mensur Dlakic
★ 27k
Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
Comment: Segmentation error while using a tool
by
Thanujay S
• 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA
by
Thanujay S
• 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool
by
Ruqaiya
• 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
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