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116,750 results • Page
2 of 2335
Sort: Rank
Rank
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Votes
Replies
0
votes
0
replies
93
views
Use of annotation of integrated Seurat object in single sample
Seurat
1 day ago by
Bine
▴ 60
0
votes
0
replies
99
views
News:
Beyond beginner R: Advancing your coding skills - September 16-19
Advanced-Coding
Programming
R
updated 1 day ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
214
views
Subsetting and merging back Seurat Object brings different results
Seurat
1 day ago by
Bine
▴ 60
0
votes
0
replies
120
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
NGS
Genomics
Post-doc
R-loops
updated 1 day ago by
Ram
43k • written 1 day ago by
4r-rtg
• 0
1
vote
1
reply
130
views
Discrepancy in read counts from fastq
downsampling
fastq
updated 1 day ago by
Ram
43k • written 1 day 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
1 day ago by
Rhiannon
• 0
0
votes
0
replies
94
views
Successfully identified and Masked rpeats using RM. What Next?
sequence
annotation
repeatmasker
illumina
assembly
1 day ago by
Vijith
▴ 30
9
votes
10
replies
449
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 1 day ago by
Zamin Iqbal
▴ 20 • written 2 days ago by
nicole.kavanagh
• 0
0
votes
1
reply
266
views
Is there a way to increase the automatic label text size in Cytoscape?
Cytoscape
updated 1 day ago by
Scooter
▴ 280 • written 8 days ago by
avocado123
• 0
0
votes
0
replies
90
views
Combining Methylation Microarray data from different platforms
Microarray
DNA
EPIC
450K
Methylation
1 day ago by
James
▴ 10
0
votes
1
reply
578
views
Basic stats in hierfstat
Fst
stats
hierfstat
updated 1 day ago by
mdav
• 0 • written 18 months ago by
Zoe
• 0
1
vote
3
replies
211
views
Odd alignment question/finding
Alignment
updated 16 hours ago by
barslmn
★ 2.1k • written 1 day ago by
poordumbsillyidiot
• 0
0
votes
1
reply
196
views
GATK won't produce figures while analyzing covariates to generate 'recal_plots.pdf'
GATK
recalibration
updated 2 days ago by
GenoMax
142k • written 2 days ago by
mgranada3
▴ 30
0
votes
0
replies
92
views
Tassel 5 GBS: GBSSeqToTagDBPlugin producing empty database
GBS
Tassel5
2 days ago by
meck
• 0
0
votes
0
replies
117
views
Looking for the best way to interpret these data
RNA-seq
ontology
GO
updated 2 days ago by
Ram
43k • written 2 days ago by
Oscar
▴ 10
0
votes
7
replies
502
views
Post-imputation plot
michigan-imputation-server
quality-control
updated 1 day ago by
LChart
3.9k • written 4 days ago by
kl
▴ 10
0
votes
1
reply
211
views
How to find overlap of clusters in two seurat porject
clustering
seurat
updated 2 days ago by
Adam
▴ 30 • written 3 days ago by
J
• 0
1
vote
3
replies
287
views
DESeq2 processing problems
deseq2
R
updated 2 days ago by
ATpoint
82k • written 2 days ago by
jagdish7921
• 0
0
votes
1
reply
772
views
cnetplot category names are too long
clusterprofiler
RNA-Seq
enrichplot
cnetplot
updated 1 day ago by
Ram
43k • written 2.7 years ago by
carov
• 0
0
votes
1
reply
136
views
Mutect2 for mitochondria variant discovery
mutect2
mitochondria
updated 2 days ago by
Ram
43k • written 2 days ago by
ernestine.kubi
• 0
0
votes
0
replies
102
views
Tools to circularise the ion torrent bacterial genome assembly
iontorrent
bacteria
circularise
2 days ago by
VITALA
• 0
1
vote
2
replies
238
views
POSSUM not working due to incompatible pssm file
fasta
pse-pssm
pssm
POSSUM
1 day ago by
rianna.collins
• 0
0
votes
1
reply
174
views
Alternatives to metanalyisis. P integration. Horiztonal integration RNA-seq
rna-seq
updated 2 days ago by
i.sudbery
19k • written 3 days ago by
Edmond
• 0
0
votes
0
replies
140
views
What open-source tools can determine the coverage/completion of a pathway based on EC numbers?
metagenomics
metacyc
enzyme
pathway
genomics
3 days ago by
O.rka
▴ 710
0
votes
1
reply
546
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 2 days ago by
Ram
43k • written 3 days ago by
Dr Huma Naz
• 0
2
votes
2
replies
259
views
p-value in CIBERSORT
CIBERSORT
p-value
2 days ago by
michelafrancesconi9
▴ 20
0
votes
5
replies
350
views
Telescope issue
Telescope
RNA-seq
updated 2 days ago by
GenoMax
142k • written 3 days ago by
eleven11
• 0
5
votes
6
replies
504
views
Programmatically retrieving positions of protein active site residues
Uniprot
PDB
Proteins
updated 3 days ago by
me
▴ 760 • written 4 days ago by
Mariana
▴ 40
1
vote
1
reply
221
views
Adjust pvalue in R with different approach give me all different outcome
statistics
R
p-value
updated 3 days ago by
Ram
43k • written 3 days ago by
Jonathan Yoou
▴ 60
1
vote
2
replies
278
views
Minimum RAM and Storage requirement for creating PSSM using ncbi-blast-2.2.30+-x64-linux
blast
pssm
2 days ago by
Nafi
• 0
1
vote
3
replies
267
views
What does 'bundle_uuid' refer to in this metadata sheet?
SRA
illumina
GEO
metadata
updated 3 days ago by
GenoMax
142k • written 3 days ago by
jeffrey.maurer.informatics
• 0
0
votes
2
replies
218
views
ERROR When Using Ensembl Plants Biomart Wget API
biomart
plant
ensembl
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Dora
▴ 10
0
votes
0
replies
158
views
News:
Goodbye, Slow Code? How BioNumpy can Redefine Python’s Role in Bioinformatics!
BioNumPy
Python
NumPy
updated 3 days ago by
Ram
43k • written 3 days ago by
Chakri
• 0
0
votes
1
reply
173
views
RNA editing sites based on DNA seq and RNA seq
RNA-editing
updated 2 days ago by
Adam
▴ 30 • written 3 days ago by
Ahiad Chen Zion
• 0
1
vote
5
replies
304
views
Introduce SNPs on FASTA
simulation
snps
haplotypes
pharmacogenetics
16 hours ago by
Riccardo
▴ 10
0
votes
0
replies
125
views
barcode of TCR-sequencing
barcode
3 days ago by
yueli7
▴ 250
0
votes
0
replies
125
views
News:
Online course: Meta-analysis in R - last 2 seats left
Meta-Analysis
Statistics
R
updated 3 days ago by
Ram
43k • written 3 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
120
views
Somatic variant calling with Mutect2 using 2 matched-normals for one sample
cancer
mutect
variant-calling
GATK
somatic-variants
updated 3 days ago by
Ram
43k • written 3 days ago by
Alexandros
• 0
0
votes
1
reply
163
views
unable to get feature count results
featureCounts
updated 3 days ago by
Ram
43k • written 3 days ago by
Ravita
• 0
0
votes
3
replies
268
views
KEGG Pathways
r
RNA-seq
updated 3 days ago by
Ram
43k • written 3 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 3 days ago by
Andres
▴ 20 • written 9.6 years ago by
hermathena
▴ 40
0
votes
0
replies
129
views
Seurat object reductions (PCA, UMAP,..) after subsetting data
Seurat
3 days ago by
Bine
▴ 60
0
votes
1
reply
276
views
News:
FINAL CALL: 8th Berlin Summer School in NGS Data Analysis - Only a few last places available
DNA-seq
variant-calling
RNA-seq
illumina
transcriptomics
3 days ago by
David Langenberger
11k
0
votes
1
reply
181
views
Deseq2
Deseq2
updated 3 days ago by
Jack Tierney
▴ 360 • written 3 days ago by
Sudip
• 0
1
vote
1
reply
215
views
Polishing genome assembly
polishing
Nanopore
PacBio
updated 3 days ago by
Michael
54k • written 4 days ago by
Lissa Cruz Saavedra
• 0
5
votes
3
replies
264
views
6 follow
Integrate transcriptomic data and proteomics data.
OMICS
updated 3 days ago by
Lluís R.
★ 1.2k • written 3 days ago by
이민경[학생](대학원 융합의과학과)
• 0
2
votes
2
replies
189
views
MA plot of shrunken fold change
MA-plot
Deseq2
updated 3 days ago by
ATpoint
82k • written 3 days ago by
Sudip
• 0
1
vote
2
replies
221
views
Need help for downloading arabdopsis thaliana reference genome fasta file and gtf file
Arabidopsis-thaliana
gtf
reference-genome
updated 3 days ago by
Ram
43k • written 3 days ago by
Ravita
• 0
0
votes
0
replies
110
views
Gene Specific coverage from WGS data
linux
WGS
Bioinformatics
SARS
CoV2
3 days ago by
Adyasha
• 0
0
votes
0
replies
112
views
human gut metagenome taxonomy profile table and KO profile table from big cohort
metagenome
gut
human
3 days ago by
fanglujing
▴ 60
116,750 results • Page
2 of 2335
Recent Votes
Merging a large number of VCF files
A: Merging a large number of VCF files
A: pulling snps from vcf file using ids
pulling snps from vcf file using ids
Comment: No INFO/info value in headers
how to combine multiple RNAseq count files into a single dataframe in R and unix
Comment: Greatly speed up conda by using mamba
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Popular Question
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SHN
▴ 40
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Rob
▴ 170
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to
GenoMax
142k
Popular Question
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curious
▴ 750
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M.
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carolofharvest
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e.r.zakiev
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Recent Replies
Answer: The GDC Legacy Archive is retiring soon.
by
lcordeiro
▴ 40
Hi Zhenyu, do you happen to know how I can download metadata for some of the legacy files? I downloaded several IDATs from the legacy data …
Answer: Force PLINK2 to neglect chrX as the sex chromosome
by
chrchang523
10k
(cross-posted from https://groups.google.com/g/plink2-users/c/Qphx_6BpPII ) You need to use --chr-set, not --allow-extra-chr, to specify…
Answer: Easy way to find out which allele is minor allele from bed file?
by
chrchang523
10k
This question does not make sense. If you care about allele-order "information [being] lost in downstream applications", REF/ALT is the ob…
Answer: visualize GSEA
by
bk11
★ 2.4k
I have made some edits in your code basically changing the position of text and commented out the line `data$text_pos <- ifelse(data$NES > …
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Pictures of code are useless. You were told to paste the code and use the 0101 button. Can you explain why you decided not to do that? If…
Comment: Differential Expression Analysis using DESeq2 in R
by
Erina
• 0
![Here is the code I am using for the analysis][1] [1]: /media/images/8a511904-6ae8-47f5-b647-ee15b02b
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
by
swbarnes2
14k
In paired end sequencing, every read has a mate, and the flags all together tell you not only what is up with the read you are looking at, …
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
Mbofire
• 0
I need assistance don't know what to do next after signing up
Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴ 750
According to the link: "When *generating* such filesets, PLINK 1.x defaults to swapping the alleles whenever A1's frequency is above (not …
Comment: TaxID mapping file
by
GenoMax
142k
nodesDB file should have been installed if you had used "Install" script for `blobtools` according to : https://blobtools.readme.io/docs/ta…
Comment: Parametric or non-parametric tests for qPCR significance testing between treatme
by
e.r.zakiev
▴ 210
obviously if the values are really sampled from a (quasi) normally-distributed values, then n doesn't matter, he could use t-test even with…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
Understood Thank you!
Comment: Converting CRAM to FastQ
by
GenoMax
142k
You can use any reference that you like at this point. Since you are planning to use GATK, you can get their version from the resource bund…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
![enter image description here][1]I was able to get my fastq files. I can see that my reference files are cached in a hts-ref directory but…
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Okay, that shows us the problem, but not what we need to solve it. But, for instance, are you sure that period after the sample name shou…
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