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120,174 results • Page
3 of 2404
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
202
views
GWAS for Klebsiella isolates
technical
help
GWAS
8 days ago by
Bahnie
• 0
0
votes
0
replies
197
views
CoCoRV - Which file from gnomAD as control
Variants
Rare
WES
8 days ago by
andrebolerbarros
• 0
2
votes
1
reply
261
views
SNP/kb in chromosome wise
Variant
SNP
Calling
updated 8 days ago by
Pierre Lindenbaum
165k • written 9 days ago by
adarsh_munna
▴ 50
0
votes
0
replies
197
views
time to event GWAS
signals
independent
updated 8 days ago by
GenoMax
148k • written 8 days ago by
JJ
• 0
3
votes
9
replies
552
views
single-cell zeros handling, inputation and filtration
zeros
single-cell
updated 7 days ago by
jared.andrews07
★ 18k • written 8 days ago by
frarodmar17
• 0
0
votes
3
replies
292
views
submitting to SRA database
files
pod5
SRA
updated 8 days ago by
ATpoint
86k • written 8 days ago by
baibhu1234
• 0
4
votes
3
replies
384
views
Flattened TSS enrichment x unique fragments from scATAC experiment
ATAC
updated 8 days ago by
jared.andrews07
★ 18k • written 9 days ago by
forestyang
• 0
1
vote
2
replies
298
views
biopython UI?
biopython
updated 2 days ago by
Wayne
★ 2.1k • written 8 days ago by
tada
• 0
2
votes
6
replies
419
views
determine softmask regions from FASTA
BED
FASTA
softmask
updated 8 days ago by
lieven.sterck
15k • written 8 days ago by
Matteo Ungaro
▴ 110
0
votes
4
replies
382
views
Number of reads supporting a structural variant value in Dragen structural variant calling output
Structural
VCF
variants
Manta
updated 8 days ago by
benformatics
4.1k • written 9 days ago by
ieie
▴ 10
3
votes
2
replies
539
views
Strategy for mapping rat and human gene symbols from scRNA-seq data - dealing with inconsistent nomenclature
Orthologs
scRNAseq
updated 9 days ago by
ATpoint
86k • written 10 days ago by
dxj294
• 0
0
votes
0
replies
182
views
News:
online course: R/Bioconductor for Mass Spectrometry and Proteomics
Bioconductor
R
Spectrometry
Mass
Proteomics
9 days ago by
Physalia-courses
★ 2.6k
4
votes
5
replies
366
views
What is the interpretation of sequence enrichment in whole genome sequencing?
sequencing
WGS
enrichment
updated 9 days ago by
GenoMax
148k • written 9 days ago by
marongiu.luigi
▴ 730
2
votes
9
replies
980
views
Metabat2 (binning package) Error: ReferenceFile: <filename>.fasta is not the same as in the bam headers! (targets: 10575 from the bam vs 67331 from t…
binning
metagenomics
metabat2
2 days ago by
samdegregori
• 0
0
votes
0
replies
160
views
Combining expression and mutation data from TCGA
TCGA
updated 9 days ago by
Bastien Hervé
6.1k • written 9 days ago by
Maliha
• 0
0
votes
1
reply
817
views
Annotate .fcs files with gated population classification
FACS
Flow Cytometry
FlowJo
updated 9 days ago by
Dylan
• 0 • written 4.3 years ago by
Benni
▴ 30
0
votes
0
replies
174
views
Converting map & ped files to binary file. Missing info
Map
Ped
plink
updated 9 days ago by
Ram
44k • written 9 days ago by
mulderharko
• 0
0
votes
2
replies
1.4k
views
Error in .Call2("C_solve_user_SEW", refwidths, start, end, width, translate.negative.coord
maftools
updated 9 days ago by
garcesj
▴ 50 • written 20 months ago by
alwayshope
▴ 40
1
vote
3
replies
281
views
Is there a way or a tool to compare two hmm DNA profiles?
biotool
hmmprofile
hmm-hmm
8 days ago by
abarcajose97
• 0
5
votes
2
replies
338
views
LASSO regression for gene selection and clinical variables
LASSO
feature
classification
selection
edgeR
updated 9 days ago by
Mensur Dlakic
★ 28k • written 10 days ago by
fabian
▴ 10
0
votes
4
replies
332
views
How to Check the Quality of a .fasta File for Sequence Alignment?
sequence-alignment
fasta
quality-control
updated 9 days ago by
colindaven
7.0k • written 9 days ago by
Dikshya
• 0
0
votes
3
replies
272
views
Kmerfinder database with bacteria, archea, and eukaryotic data
kmer
updated 9 days ago by
lieven.sterck
15k • written 10 days ago by
Mark
▴ 20
5
votes
5
replies
363
views
rna-seq reads not passing fastqc
rna-seq
fastqc
9 days ago by
Luna
• 0
3
votes
6
replies
386
views
Is there a proper way to choose bins in barplot
visualization
plot
bar
9 days ago by
QX
▴ 70
1
vote
1
reply
253
views
Seeking advice for a machine learning project with RNA-seq data
ML
gene_expression
machine_learning
DGE
deep_learning
updated 8 days ago by
dthorbur
★ 2.6k • written 10 days ago by
ymd56731
▴ 10
4
votes
6
replies
862
views
DESeq2: error in checkFullRank(modelMatrix)
DESeqDataSet
design
DESeq2
RNA-Seq
updated 8 days ago by
i.sudbery
21k • written 9 weeks ago by
tilia
• 0
0
votes
0
replies
166
views
Search and return transcript types from gene symbols by querying mygene.info or ensembl rest APIs
Gene
Ensembl
MyGene
Transcriptomics
Identification
10 days ago by
m.musgrove
• 0
0
votes
0
replies
167
views
Questions about genome annotation of non-coding RNA with infernal
ncRNA
annotation
10 days ago by
Abieskawa
• 0
3
votes
1
reply
237
views
samtools tview special character
samtools
bam
rna
updated 10 days ago by
Pierre Lindenbaum
165k • written 10 days ago by
from the mountains
▴ 250
0
votes
2
replies
468
views
snpEff 'java.lang.OutOfMemoryError: Java heap space' problem despite increasing initial and maximum heap size to 10g and 20g respectively
heapsize
conda
snpeff
anaconda
java
updated 9 days ago by
colindaven
7.0k • written 10 days ago by
millielam
• 0
0
votes
6
replies
520
views
Convert miRNA_ID to GENE-symbol
Gene_Symbol
updated 8 days ago by
i.sudbery
21k • written 12 days ago by
sorour.hasani
• 0
1
vote
0
replies
215
views
Job:
A 2 year postdoc position: The Genetics of the Silk Road
Postdoc
ancientDNA
paleogenetics
SilkRoad
AI
10 days ago by
eranelhaik
▴ 30
0
votes
1
reply
183
views
scRNA-seq analysis after overexpressing a specific gene
overexpression
scRNA-seq
updated 10 days ago by
rfran010
★ 1.3k • written 10 days ago by
Song
▴ 10
0
votes
3
replies
281
views
SCRNA calculate the average expression
SCRNA
cell-single-sequence
updated 9 days ago by
rfran010
★ 1.3k • written 10 days ago by
fuhaolll2
▴ 30
2
votes
1
reply
212
views
Degree of Freedom Settings in edgeR limma
degree
freedom
voom
analysis
differential
of
edgeR
limma
updated 10 days ago by
ATpoint
86k • written 10 days ago by
Wu-Sheng Zhang
• 0
0
votes
0
replies
153
views
Convert genepop to bayescan format
RAD-seq
bayescan
genepop
pgdspider
stacks
updated 10 days ago by
GenoMax
148k • written 10 days ago by
eaabbott0
• 0
2
votes
3
replies
279
views
missing data in taxonomy
taxonomy
ncbi
10 days ago by
noodle
▴ 620
3
votes
3
replies
288
views
NA12878, NA12891 and NA12892 gold standard samples information
standard
gold
variant
BAM
calling
updated 10 days ago by
GenoMax
148k • written 10 days ago by
heureuse
• 0
0
votes
0
replies
152
views
AA/AB/BB Genotype information to Numeric
genotype
illumina
SNP
10 days ago by
Emilie
▴ 10
0
votes
2
replies
229
views
Merge paired end reads after mapping in BAM files
bam
paired-end
merge
updated 10 days ago by
rfran010
★ 1.3k • written 10 days ago by
muhammad_elhossary
• 0
0
votes
0
replies
140
views
How to perform cross-species integration?
Integration
Seurat
single-cell
scrna-seq
10 days ago by
Shankar112
• 0
6
votes
9
replies
480
views
Unexpected spliced/unspliced percentages in scRNA-seq data
seq
Spliced
unspliced
analysis
velocity
data
scRNA
updated 10 days ago by
predeus
★ 2.1k • written 11 days ago by
Madiha
▴ 10
0
votes
2
replies
268
views
Spliced and unspliced counts from HIVE scRNA-seq data
hive
velocyto
scvelo
scrna-seq
10 days ago by
anna_o
• 0
1
vote
1
reply
240
views
Whole genome resequencing sample size for population genetics?
whole_genome_resequencing
population_genetics
updated 10 days ago by
dthorbur
★ 2.6k • written 11 days ago by
Dylan
• 0
0
votes
1
reply
211
views
Job:
Post-doctoral Research Fellow Level 1
Biomedical
Researcher
Post-doc
Biomolecular
11 days ago by
jagoda.wychowaniak
• 0
7
votes
14
replies
773
views
Proteomics data analysis
data-analysis
biostatistics
statistics
proteomics
9 days ago by
Ariadna
▴ 20
0
votes
0
replies
192
views
News:
Online course: Gene set enrichment analysis in R/Bioconductor
R
Bioconductor
GSEA
GeneSetEnrichmentAnalysis
11 days ago by
Physalia-courses
★ 2.6k
1
vote
3
replies
462
views
How to connect the tips of several phylogenetic trees with ggtree?
R
tanglegram
phylogenetic
tree
ggtree
12 days ago by
Luca Arbore
▴ 10
1
vote
5
replies
519
views
Extracting CDS Region of FFAR4 Gene Using Samtools from GRCh38 Reference Genome
samtools
ccds
grch38
genome
cds
updated 10 days ago by
jkbonfield
★ 1.3k • written 13 days ago by
Rohan
▴ 40
1
vote
2
replies
304
views
How to extract and analyze variant sequences from gnomAD v4 exome VCF
samtools
bcftools
exome
vcf
genomics
12 days ago by
Rohan
▴ 40
120,174 results • Page
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Recent Votes
Answer: FPKM without normalization
Answer: FPKM without normalization
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Answer: 16S SILVA with Kraken2 doesn't classfying at species level
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Recent Replies
Comment: PacBio long read processing
by
GenoMax
148k
What kind of quantification? PacBio has many video tutorials available: https://www.pacb.com/learn/resources/educational-videos/ They als…
Comment: How can I add new column into Metadata of Seurat.obj in Xenium analysis
by
Bastien Hervé
6.1k
If your dataframe is named `meta`, this should work : xenium.obj[rownames(meta), "cell.type"] <- meta[,"ct"]
Comment: File h5ad for SEVtras
by
Matteo
• 0
Unfortunately it isn't. it's not similar to the file the authors loaded as a test. i don't know how to go ahead this problem, I would like …
Comment: 16S SILVA with Kraken2 doesn't classfying at species level
by
Aytaç
• 0
Most of them are for shotgun. For 16S there is 3 database as I said. They don't do species level classification as good as shotgun ones. Th…
Comment: ChromHMM - annotation of chromatin states
by
e.r.zakiev
▴ 230
well, what they did is clearly they ran ChromHMM against a set of `bed` files (names in the columns), with at least 12 states as the number…
Comment: Facing issue while running PHASTEST docker
by
Mohit
• 0
Did you figure it out? how to solve as i m also getting same error.
Answer: FPKM without normalization
by
ATpoint
86k
Nobody can tell you because you do not say that exactly your strategy is. Generally, FPKM is a normalized unit, but it has been shown many …
Comment: capmq and verifybamid
by
Peter Chung
▴ 210
Yes, you are correct, I am dealing with the containmation issues, and after the capmq package, I still can not lower the FREEMIX value to m…
Comment: Setting ploidy level in gatk
by
analyst
▴ 50
I will look into it thanks!
Comment: constructing de novo assembly of plant short reads
by
analyst
▴ 50
Abyss output scaffolds.fa file contains short kmer sized scaffolds. I am putting first few lines of scaffolds.fa file here as: >0 37 2…
Answer: 16S SILVA with Kraken2 doesn't classfying at species level
by
noodle
▴ 620
All my kraken2 problems went away after I used the pre-built stuff from this website; https://benlangmead.github.io/aws-indexes/k2
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J.F.Jiang
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YES, using bedtools or GRanges can map the genomic region to promoter regions. However, it seems that the enhancer or super-enhancer region…
Comment: bcftools mpileup returns vcf files with only headers
by
Istvan Albert
102k
the way `mpileup` was intended to work is to compute a genotype likelhood for every base! It will produce a line for every base that has co…
Answer: What additional info is found in BAM files from PacBio HiFi compared to Fastq fi
by
Billy Rowell
▴ 450
For a true "authoritative" answer, I'd email [support@pacb.com](mailto:support@pacb.com). I work at PacBio, but I have no authority. > Wh…
Comment: What additional info is found in BAM files from PacBio HiFi compared to Fastq fi
by
Billy Rowell
▴ 450
A standard Revio output should be ~50-60GB max. Your service provider probably saved consensus kinetics to your BAM as well, which include…
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