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121,949 results • Page
149 of 2439
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Votes
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0
votes
1
reply
3.4k
views
Impact of k-mer length for kraken2 database
sequence
updated 19 months ago by
Dave
• 0 • written 6.4 years ago by
josmos43
• 0
2
votes
4
replies
2.6k
views
Bacterial genome assembly, best uses of reads at excessively high sequencing depth?
bacteria
pacbiohifi
assembly
coverage
genome
19 months ago by
ian.will
▴ 30
3
votes
7
replies
1.9k
views
hg38 goldenPath cpgIsland is down?
cpg
ucsc
goldenPath
annotatr
cpgIsland
updated 19 months ago by
Maximilian Haeussler
★ 1.8k • written 20 months ago by
mariatmaria
• 0
0
votes
0
replies
523
views
News:
Online course: R/Bioconductor for Mass Spectrometry and Proteomics
R
Proteomics
Bioconductor
Mass-Spectrometry
updated 19 months ago by
Ram
45k • written 19 months ago by
Physalia-courses
★ 2.6k
1
vote
2
replies
759
views
How to use gsub inside mapply to assign names to Seurat objects
scATAC-seq
seurat
updated 19 months ago by
Ram
45k • written 19 months ago by
kousi31
▴ 100
0
votes
0
replies
324
views
GENIE3
LinkList
GENIE3
regulators
19 months ago by
r.shiasi3897
▴ 10
0
votes
4
replies
1.1k
views
Identifying non-paralogous protein or nucleic acid sequences without using CD-HIT
CD-HIT
updated 18 months ago by
Ram
45k • written 19 months ago by
koushiksarker1977
• 0
0
votes
1
reply
702
views
Issue with cDNA PCR artifact in RNA-Seq dataset
PCR
RNA-seq
artifact
cDNA
updated 19 months ago by
Matthias Zepper
5.1k • written 19 months ago by
metzgeryonatan
• 0
0
votes
0
replies
516
views
Proteomics : imputation of missing values in all replicates
proteomics
19 months ago by
lagartija
▴ 160
0
votes
2
replies
762
views
STAR install error
STAR
19 months ago by
mnx0723
• 0
1
vote
5
replies
1.2k
views
Depth of aligned fragments
PCR
Depth
updated 19 months ago by
GenoMax
154k • written 19 months ago by
saifulislam99121
• 0
10
votes
12
replies
3.9k
views
Tool:
PanDepth, an ultra-fast and efficient genomic tool for coverage calculation
bam
paf
depth
cram
coverage
19 months ago by
Huiyang
▴ 200
2
votes
2
replies
1.4k
views
Linear Mixed-Effects Model Coefficient Interpretation
LMER
mixed-effects
R
modeling
19 months ago by
BioNovice247
▴ 20
0
votes
0
replies
561
views
Struggling to use the compare cluster function in Cluster Profiler
R
proteomics
updated 19 months ago by
Ram
45k • written 19 months ago by
S'bonelo Glen
• 0
1
vote
3
replies
1.9k
views
reading scRNAseq .h5 file into anndata format from GEO - No clear matrix?
RNA-seq
updated 19 months ago by
bk11
★ 3.1k • written 19 months ago by
charlieclark1ee
▴ 20
7
votes
5
replies
4.1k
views
What is chr EBV in human sam file?
SAM
Bowtie2
written 7.2 years ago by
salamandra
▴ 550
0
votes
2
replies
935
views
Why does Biopython's SeqIO.parse() truncate sequences when it encounters repeated bases?
biopython
updated 19 months ago by
Joe
22k • written 19 months ago by
joreamayarom
▴ 140
0
votes
0
replies
477
views
News:
Virtual Workshops with the UConn Computational Biology Core
Workshop
genomics
updated 19 months ago by
GenoMax
154k • written 19 months ago by
mia.nahom
▴ 10
0
votes
3
replies
1.1k
views
Why remove multiallelic sites ?
sites
multiallelic
updated 19 months ago by
Ram
45k • written 19 months ago by
Andrea Catalina
• 0
0
votes
0
replies
731
views
cannot plot with rmats2sashimiplot
rmats2sashimiplot
rMATS
19 months ago by
thomas.heigl.ibk
• 0
4
votes
3
replies
834
views
Single cell analysis of Cancer
cancer
single-cell
RNA-seq
updated 19 months ago by
GenoMax
154k • written 19 months ago by
moustafa_abohawya
▴ 30
0
votes
1
reply
772
views
GWAS on unbalanced case-control UKB dataset using PLINK2
unbalanced
PLINK2
UKB
case-control
updated 19 months ago by
bk11
★ 3.1k • written 19 months ago by
DobraVila
• 0
0
votes
1
reply
993
views
Why am I receiving an error with RUVg in RUVseq
ruvseq
batch-correction
rna-seq
updated 19 months ago by
jv
★ 1.9k • written 3.6 years ago by
mnagy1716
• 0
0
votes
1
reply
737
views
Strange distribution of logFC values after searching for significantly differentially expressed genes
limma
19 months ago by
Robert
• 0
3
votes
4
replies
1.3k
views
Enrichment Analysis with Fisher's exact test
enrichment
fisher
updated 19 months ago by
i.sudbery
22k • written 19 months ago by
beepboop
• 0
1
vote
4
replies
1.9k
views
Obtain a --gene-trans-map file after rnaSPAdes
rnaSPAdes
Trinity
updated 19 months ago by
weidonglu
• 0 • written 2.3 years ago by
UserA
• 0
0
votes
1
reply
568
views
How can I determine the p-value of genes within each identified module in WGCNA?
WGCNA
exportNetworkToCytoscape
updated 11 months ago by
allingt
▴ 40 • written 19 months ago by
hiamour
• 0
2
votes
3
replies
1.3k
views
Need suggestions for ROC Curve in R
curve
roc
python
r
updated 19 months ago by
bk11
★ 3.1k • written 19 months ago by
shabbas12
▴ 10
2
votes
5
replies
2.0k
views
Jellyfish & Paired end reads
Jellyfish
genome-assembly
kmer
updated 19 months ago by
Darked89
4.7k • written 19 months ago by
joshua.j.wright
▴ 10
0
votes
0
replies
853
views
Job:
PhD fellowship in bioinformatic analysis of host - pathogen interactions in the context of anti-microbial resistance in pigs
non-coding-RNA
updated 19 months ago by
Ram
45k • written 19 months ago by
info
▴ 80
0
votes
0
replies
448
views
Conservation score using phastCons
ucsc
phastcons
conservation
multiz100way
19 months ago by
didemdkn
• 0
6
votes
2
replies
2.3k
views
Guided genome assembly
Genome
pacbio
reads
assembly
updated 19 months ago by
dthorbur
★ 3.1k • written 19 months ago by
san96
▴ 190
0
votes
1
reply
626
views
#Bismark Methylation mapping Error
Bismark0.24
Multicore
Methylation
updated 19 months ago by
GenoMax
154k • written 19 months ago by
Nai
▴ 50
1
vote
3
replies
1.4k
views
Pacbio Longread Depth of coverage
longread
pacbio
coverage
updated 19 months ago by
Bas
• 0 • written 20 months ago by
hellbio
▴ 520
0
votes
2
replies
829
views
How to convert Mummer coords output to a Bed file?
nucmer
mummer
bed
updated 19 months ago by
Ram
45k • written 19 months ago by
Biologist
▴ 290
0
votes
0
replies
698
views
Job:
Project Scientist in Molecular Biology at UC San Diego
UCSD
Biology
LifeScience
HigherEducation
19 months ago by
UCSDBioSci
▴ 30
0
votes
1
reply
1.2k
views
Amphora2: Illegal division by zero at Phylotyping.pl line 132
phylotyping
amphora2
phylogenetic
updated 19 months ago by
Ram
45k • written 6.5 years ago by
sanzeev.dahal
• 0
0
votes
1
reply
572
views
X chromosome inactivation
X-inactivation
updated 19 months ago by
bk11
★ 3.1k • written 19 months ago by
deneusmozart
• 0
0
votes
0
replies
415
views
How to present the metabolic pathway / gene differences between two metagenome samples?
visualization
metagenomics
19 months ago by
jway
• 0
1
vote
3
replies
1.2k
views
Job:
Looking for bioinformatics help
genomics
updated 19 months ago by
Ram
45k • written 19 months ago by
aj123
▴ 130
3
votes
3
replies
1.5k
views
Expedite alphafold2 or RoseTTAFold for bulk jobs
alphafold
protein-structure
updated 19 months ago by
Ram
45k • written 3.7 years ago by
btski
▴ 10
4
votes
4
replies
2.5k
views
Is there any free online tool where I can do online docking studies of 1000 ligands with a single protein in a single step .
docking
updated 15 months ago by
keaun
▴ 40 • written 9.3 years ago by
Manoj
▴ 200
1
vote
4
replies
1.4k
views
PRSice and R lm() show different association analysis output (coefficient, SE and P)
PRS
PRSice2
UKBB
updated 19 months ago by
Sam
★ 4.8k • written 20 months ago by
Salahuddin
• 0
2
votes
2
replies
958
views
vcf-validator could not parse the alleles
vcf-validator
vcftools
vcf
19 months ago by
ekirsch
• 0
0
votes
0
replies
523
views
10X cellranger-atac generated bed files for DifBind
DiffBind
10x
bed
cellranger-atac
updated 19 months ago by
Ram
45k • written 19 months ago by
iliyal
• 0
0
votes
3
replies
1.1k
views
Coordinates of CDS sequence
CDS
genbank
fasta
updated 19 months ago by
Mensur Dlakic
★ 30k • written 19 months ago by
hemr3
▴ 10
0
votes
1
reply
669
views
RNA-Seq | DESeq2 | differentially expressed genes | Dispersion
DEGs
Dispersion
DESeq2
updated 19 months ago by
BioinfGuru
★ 2.1k • written 19 months ago by
Dominic
• 0
2
votes
2
replies
1.1k
views
Significance of P value in GSEA
gsea
p-value
updated 19 months ago by
jv
★ 1.9k • written 19 months ago by
Pumla
• 0
2
votes
7
replies
1.9k
views
How to subsample from multiple fastq files using seqtk command
seqtk
updated 19 months ago by
Ram
45k • written 19 months ago by
neha.jnu463
• 0
1
vote
2
replies
1.1k
views
bcftools merging 3540 individual files
bcftools
19 months ago by
realtreeecat
• 0
121,949 results • Page
149 of 2439
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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
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
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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
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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…
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
by
Mensur Dlakic
★ 30k
You may want to consider one of these packages: - https://www.niehs.nih.gov/research/resources/software/biostatistics/art - https://git…
Answer: conda create PackagesNotFoundError
by
cfos4698
★ 1.2k
You should explicitly name the channels from which the packages are to be installed, as the error suggests (`PackagesNotFoundError: The fol…
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