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121,950 results • Page
150 of 2439
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1
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2
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1.1k
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bcftools merging 3540 individual files
bcftools
19 months ago by
realtreeecat
• 0
1
vote
0
replies
755
views
Job:
Postdoctoral researcher in computational (epi)genomics (Maastricht, The Netherlands)
Long-read-Sequencing
Postdoc
Homo-Sapiens
Repetitive-Elements
Epigenetics
updated 19 months ago by
Ram
45k • written 19 months ago by
Athina Vidaki
▴ 40
2
votes
0
replies
918
views
Herald:
The Biostar Herald for Monday, February 12, 2024
herald
19 months ago by
Biostar
3.6k
0
votes
1
reply
2.0k
views
How to get raw mRNA count from Seurat converted anndata
anndata
Seurat
updated 19 months ago by
jv
★ 1.9k • written 19 months ago by
gradstudent
• 0
0
votes
0
replies
445
views
Seeking Guidance on Standardization Methods for eQTL Analyses with Diverse Preprocessing Techniques
GWAS
eQTL
gene-expression
updated 19 months ago by
Ram
45k • written 19 months ago by
DS
▴ 10
1
vote
5
replies
2.3k
views
cellranger error message
multiplexing
cellranger
updated 15 months ago by
Julian
• 0 • written 19 months ago by
Alivia
▴ 10
0
votes
0
replies
412
views
miRNAs biogenesis tools
mirnas
biogenesis
19 months ago by
karlaarz
▴ 110
0
votes
1
reply
590
views
IntronicParts vs. intronsByTranscript
GenomicFeatures
GenomicRanges
updated 19 months ago by
PK
▴ 130 • written 19 months ago by
kethselly
• 0
1
vote
1
reply
862
views
Exon often targeted by mobile element insertions?
epigenetics
biology
updated 19 months ago by
benformatics
4.2k • written 19 months ago by
German.M.Demidov
★ 3.0k
0
votes
0
replies
396
views
bulk RNA-seq data for triple negative breast cancer cell lines
TNBC
BreastCancer
RNAseq
CellLines
19 months ago by
bstrs
• 0
0
votes
0
replies
634
views
News:
NGS Data Analysis Courses for Absolute Beginners
NGS
DNAseq
RNAseq
singlecellsequencing
DataAnalysis
19 months ago by
David Langenberger
11k
1
vote
2
replies
1.1k
views
Transcript feature coverage with coverage of each feature shown like e.g. UTR's CDS, exons etc
rseqc
updated 19 months ago by
Huiyang
▴ 200 • written 2.6 years ago by
Saad Khan
▴ 440
2
votes
4
replies
1.3k
views
Should I exclude unmapped reads and proceed with the analysis for low mapped samples, or omit them altogether?
STAR
mapping
RNAseq
updated 19 months ago by
dthorbur
★ 3.1k • written 19 months ago by
Sib
▴ 80
0
votes
1
reply
1.5k
views
Calling variants with UMI-collapsed duplex consensus reads
Mutect2
CallDuplexConsensusReads
fgbio
UMI
updated 19 months ago by
Ram
45k • written 19 months ago by
blid11
• 0
2
votes
2
replies
13k
views
JoinLayers to find markers in merged or integrated analysis in seurat
scRNA-seq
seurat
FindMarkers
19 months ago by
mohammedtoufiq91
▴ 270
0
votes
11
replies
2.0k
views
mtDNA Cyclic Sequence Alignment CSAtool
mtDNA
alignment
CSA
updated 19 months ago by
GenoMax
154k • written 19 months ago by
marco.barr
▴ 180
1
vote
5
replies
1.4k
views
Multiple sequence alignment images
MSA
R
ggmsa
Jalview
19 months ago by
alslonik
▴ 320
4
votes
1
reply
1.1k
views
What does PCA really tells about Biological data?
techniques
reduction
Dimension
PCA
updated 19 months ago by
Philipp Bayer
8.9k • written 19 months ago by
WUSCHEL
▴ 860
12
votes
12
replies
18k
views
11 follow
ERROR: failed to find the gene identifier attribute in the 9th column of the provided GTF file.
featureCounts
updated 19 months ago by
BioinfGuru
★ 2.1k • written 5.5 years ago by
chatterjee.arumoy
▴ 60
0
votes
0
replies
362
views
eCLIP barcode extraction
eCLIP
barcodes
randomer
19 months ago by
Pac314
▴ 10
1
vote
14
replies
2.7k
views
Bowtie alignment
Bowtie2
singletons
19 months ago by
daffodil
▴ 10
2
votes
7
replies
2.1k
views
How do I use md5sum to check if my .fastq files from SRA Explorer have been downloaded correctly
scRNA-seq
md5
updated 7 months ago by
ATpoint
89k • written 19 months ago by
biotrekker
▴ 110
2
votes
6
replies
1.5k
views
Degenerate primers
Trimming
updated 19 months ago by
Ram
45k • written 19 months ago by
M1985
• 0
1
vote
1
reply
951
views
Distance index computation during `vg --autoindex` takes too long with one GFA file but not with the other.
vg
giraffe
updated 19 months ago by
Jordan M Eizenga
▴ 760 • written 19 months ago by
Harsh
• 0
0
votes
0
replies
457
views
Scores in multimir R package
R
mirna
mirdb
multimir
targetscan
19 months ago by
Serij´s
• 0
0
votes
0
replies
484
views
News:
Online course: Genome Assembly and Annotation
Annotation
Genome-Assembly
Nanopore
Pacbio
updated 19 months ago by
Ram
45k • written 19 months ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
997
views
Trouble making a ggmsa alignment plot
R
ggmsa
updated 19 months ago by
GenoMax
154k • written 22 months ago by
andre.arrudalima
▴ 80
3
votes
8
replies
1.7k
views
Adapter Removing
FastQC
updated 19 months ago by
a.alnawfal.1992
▴ 360 • written 19 months ago by
daffodil
▴ 10
1
vote
5
replies
1.2k
views
DEPTH IN GBS
Samtools
updated 19 months ago by
cmdcolin
★ 4.3k • written 19 months ago by
Michelle Guerra
• 0
1
vote
3
replies
1.0k
views
BioPython phylo: collapsing nodes on tree if node in list and rename the respective collapsed node
phylogeny
biopython
updated 19 months ago by
Ram
45k • written 19 months ago by
Naomi Sun
▴ 10
0
votes
2
replies
983
views
cover depth estimation with samtools depth and mpileup
samtools
mpileup
depth
updated 19 months ago by
Huiyang
▴ 200 • written 20 months ago by
Ирина
• 0
0
votes
0
replies
423
views
How to design and formulate a pathway to computationally study genes associated with certain linked phenotypes?
genomics
evolutionary-biology
updated 19 months ago by
Ram
45k • written 19 months ago by
amit99.success
• 0
3
votes
3
replies
1.1k
views
Splitting scRNA seq data from Multiome data(scRNA+ scATAC)
scRNA-seq
Signac
updated 19 months ago by
Ram
45k • written 20 months ago by
gradstudent
• 0
0
votes
4
replies
2.5k
views
Get original format information from SRA metadata
sra
sradb
metadata
pysradb
sqlite3
updated 19 months ago by
predeus
★ 2.1k • written 6.0 years ago by
mariafirulevabio
▴ 40
1
vote
2
replies
986
views
Problem with survival analysis with gene symbols containing hyphen
R
Survival-analysis
19 months ago by
nazaninhoseinkhan
▴ 530
0
votes
3
replies
1.2k
views
Normalization of combined normal and tumor tissue samples from GTEx and TCGA prior to CIBERSORTx devconvolution
gtex
cibersort
tcga
rna
normalization
updated 19 months ago by
jv
★ 1.9k • written 19 months ago by
star
▴ 10
0
votes
0
replies
415
views
hierarchical clustering : color the branches of the dendrogram based on the sample types
R
hierarchical-clustering
19 months ago by
sanaz
• 0
0
votes
1
reply
877
views
How to identify hub genes in Cytoscape from a WGCNA output?
wgcna
cytoscape
updated 19 months ago by
Ram
45k • written 19 months ago by
pavelasquezv
▴ 50
0
votes
1
reply
818
views
Adonis2 inR
ggplot2
adonis
updated 19 months ago by
Ram
45k • written 19 months ago by
rene.j.erhardt
▴ 30
1
vote
1
reply
716
views
Clumpify then Salmon?
Salmon
RNA-seq
Clumpify
updated 19 months ago by
Ram
45k • written 19 months ago by
JMB
▴ 20
1
vote
3
replies
1.4k
views
Get mRNA sequence from amino acid sequence using BioPython
protein
Biopython
fasta
updated 19 months ago by
Ram
45k • written 19 months ago by
brunofelicianodeomena
• 0
0
votes
2
replies
1.1k
views
TPM or RPKM for Metagenomic Contig Abundance
rpkm
metagenomics
tpm
rna-seq
updated 13 months ago by
SergFly
▴ 50 • written 19 months ago by
joshua.kirsch
• 0
0
votes
2
replies
979
views
Attempting to Use circlator running into issues with CANU
canu
circlator
19 months ago by
dlera.lozano
▴ 10
0
votes
0
replies
1.6k
views
Job:
Job Vacancy Announcement - Health Scientist Administrator (Program Officer) - Genomics Research Branch (GRB)(Branch Chief: Jonathan Pevsner)
Genetics
Program-Officer
Genomics
updated 19 months ago by
Ram
45k • written 19 months ago by
NIMH Search
• 0
0
votes
0
replies
567
views
Sequence alignment similarity score including weakly conserved groups
alignment
protein
sequence
updated 19 months ago by
Ram
45k • written 19 months ago by
Hansen_869
▴ 80
0
votes
5
replies
1.5k
views
PCA from plink2 for SGDP using a pangenome and DeepVariant
umap
DeepVariant
pangenome
plink2
pca
updated 19 months ago by
DBScan
▴ 530 • written 19 months ago by
Matteo Ungaro
▴ 130
0
votes
1
reply
591
views
Which FLASH parameters to use?
paired-end
flash
single-end
merged
updated 19 months ago by
GenoMax
154k • written 19 months ago by
Elisa
• 0
2
votes
5
replies
1.6k
views
Sequence alignment matrix
alignment
protein
sequence
updated 19 months ago by
Mensur Dlakic
★ 30k • written 19 months ago by
Hansen_869
▴ 80
10
votes
5
replies
1.5k
views
Illumina NextSeq 500 Read Length
NGS
read
NextSeq
updated 19 months ago by
jv
★ 1.9k • written 19 months ago by
analyst
▴ 70
2
votes
2
replies
1.3k
views
UMI workflow resulting in bams with empty reads
umi
19 months ago by
ww22runner
▴ 60
121,950 results • Page
150 of 2439
Recent Votes
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Slam-Seq Conversion Rate per Read
Bioinformatician, Senior Research Associate STS
Answer: conda create PackagesNotFoundError
Answer: conda create PackagesNotFoundError
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
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nuorain
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★ 2.6k
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Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
curious
▴ 890
Just adding some detail here that may help draw some connections with other posts, I did a bunch of sleuthing with selectively trimming dif…
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
cmdcolin
★ 4.3k
It's a little unclear what you mean by "I was able to use wgsim, but when I tried aligning the paired-reads, it's not aligning together."
Comment: using packages with conda
by
ATpoint
89k
Just to be sure: You ssh into a remote server, correct? Die you setup the conda environment on your local machine or the remote? Must be th…
Answer: pySCENIC aucell matrix is all 0s
by
Tripfantasy
• 0
Sorry to those of you having the same issue. I haven't been on here in quite some time! I've documented my fix on pySCENIC's github page be…
Comment: [vg giraffe] Unable to add read group to BAM file
by
anovak
▴ 160
I think this is still not quite right because I think your tags need to be tab-separated in the output to really be parseable, and here the…
Answer: MAPQ algorithms of Giraffe
by
anovak
▴ 160
`vg giraffe` does not use the exact same MAPQ algorithm as bwa-mem. However, its mapping qualities are still meant to be Phred-scale probab…
Comment: using packages with conda
by
raquel
• 0
Yes, I'm using SSH session
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
Mensur Dlakic
★ 30k
I think only a fraction of sequencing errors can be specified. If a mix of a reference and a mutated genome is included, setting sequencing…
Comment: using packages with conda
by
ATpoint
89k
Cannot reproduce. Is this run via some sort of server/HPC/scheduler/something?
Comment: limmaFit error when comparing TCGA RNA-Seq data
by
ATpoint
89k
Seriously, an ordinary limma-voom analysis between two groups is as little of 5 lines of code. Please read the limma user guide which cover…
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
GenoMax
154k
Do you know if ART is able to generate known mutations.
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
GenoMax
154k
> which will also give me list of the variants Do either of these packages satisfy the requirement of generating known mutations?
Comment: DNA copy number blacklist for excluding common unreliable regions
by
dthorbur
★ 3.1k
Please include target species you are working on. These availability of these kinds of resources will be quite variable depending on how es…
Comment: Functional prediction for proteins of bacteria.
by
dthorbur
★ 3.1k
Can you be more specific about what kind of changes you are interested in? For example, are the biochemical changes or structural changes p…
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
colindaven
8.0k
The best one I've used for ONT reads so far is badread - https://github.com/rrwick/Badread For illumina I've used and like insilicoseq - h…
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