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122,019 results • Page 303 of 2441
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Variant calling on synthesized DNA
Nanopore Calling MinION Variant sequencing SNP Python
updated 2.7 years ago by 8.0k • written 2.7 years ago by ▴ 30
0
votes
0
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530
views
FWS calculation using plink data
vcf Fws Plink
2.7 years ago by anithanagaraj93 ▴ 10
0
votes
0
replies
469
views
qPCR missing data
Bioconductor Analysis Expression qPCR
2.7 years ago by Prerna • 0
0
votes
0
replies
590
views
Pathway Analysis for Cancer Spatial Transcriptomics Characterization
Spatial Pathway Oncology Transcriptomics Enrichment
updated 2.7 years ago by 154k • written 2.7 years ago by • 0
2
votes
2
replies
1.0k
views
difference between chip-seq and association study
association chip-seq TWAS
2.7 years ago by rheab1230 ▴ 150
2
votes
4
replies
2.5k
views
Issues With Using Singularity In Order To Run Software "quested access to the resource is denied"
Singularity
updated 2.7 years ago by 89k • written 2.7 years ago by ▴ 10
0
votes
6
replies
4.4k
views
Gene trans map for Trinotate input using non-Trinity assembled transcriptome?
RNAseq transcriptomics Trinotate assembly annotation
updated 2.7 years ago by ▴ 90 • written 3.7 years ago by • 0
0
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1
reply
1.1k
views
gff2bed fails with "Non-numeric start coordinate. "
bedops
updated 2.7 years ago by ▴ 30 • written 2.7 years ago by ▴ 60
0
votes
0
replies
939
views
Using bigWigCompare to correct for input signal
peaks chip-seq deeptools bigwig
updated 2.3 years ago by 45k • written 2.7 years ago by • 0
4
votes
2
replies
967
views
Creating reference genome that includes HIV genome
alignment
2.7 years ago by FrankStarling ▴ 60
0
votes
0
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619
views
Trying to understand the difference between between these two HGVS
hgvs
2.7 years ago by curious ▴ 900
2
votes
0
replies
1.1k
views
Herald: The Biostar Herald for Monday, February 06, 2023
herald
2.7 years ago by Biostar 3.6k
2
votes
2
replies
1.4k
views
How to compare different illumina indices with each other to see how similar or different they are
alignment sequencing rna-seq
updated 2.7 years ago by 154k • written 2.7 years ago by ▴ 320
0
votes
0
replies
545
views
network alignment and network regression
network
2.7 years ago by Bogdan ★ 1.4k
0
votes
0
replies
460
views
Can't convert paired end BAM to bed using bedtools
BAM BEDPE
updated 2.7 years ago by 154k • written 2.7 years ago by • 0
0
votes
0
replies
757
views
Why does bcftools call from different max-depth (-d) value in mpileup give inconstant GT values?
vcf variant-calling bcftools mpileup
updated 2.3 years ago by 45k • written 2.7 years ago by ▴ 30
0
votes
1
reply
937
views
MetaboAnalyst: Interpreting Enrichment Analysis Results
enrichment metabolomics
2.7 years ago by eva_u ▴ 30
2
votes
3
replies
1.1k
views
Mapping with bbmap.sh
bbtools SAM bbmap
updated 2.7 years ago by 154k • written 2.7 years ago by ▴ 40
0
votes
0
replies
607
views
News: Course - Version Control for Researchers
VersionControl GIT Github
2.7 years ago by Physalia-courses ★ 2.7k
0
votes
4
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1.8k
views
geom_errorbar not dodging or producing horizontal line
ggplot2 geom_errorbar
updated 2.7 years ago by ▴ 60 • written 2.7 years ago by ▴ 50
3
votes
5
replies
1.2k
views
Size of two scRNA-Seq conditions
scRNA-Seq
2.7 years ago by Chris ▴ 360
6
votes
4
replies
1.9k
views
What type of database does gnomAD use?
gnomAD
updated 2.7 years ago by 23k • written 2.7 years ago by ▴ 20
1
vote
3
replies
1.9k
views
Dealing with missing (NA) values in my 450K methylation array dataset
minfi PCA expression Methylation R
updated 2.7 years ago by ★ 2.1k • written 2.7 years ago by ▴ 110
0
votes
1
reply
527
views
snp Caenorhabditis elegans
snp Caenorhabditis-elegans
updated 2.7 years ago by 45k • written 2.7 years ago by • 0
2
votes
2
replies
1.2k
views
Code for cuffdiff, NIOSeq, bayseq to perform DEG analysis
DEG
updated 2.6 years ago by 45k • written 2.7 years ago by • 0
0
votes
0
replies
464
views
Mapping IDs to systematic names (GOSim, setevidencelevel() )
GOSim
2.7 years ago by eliska.ochodkova • 0
0
votes
1
reply
771
views
Novogene somatic results with GATK mutect2
Mutect2 Novogene GATK somatic VCF
updated 2.7 years ago by 154k • written 2.7 years ago by ▴ 20
2
votes
5
replies
2.1k
views
fastqc: Per base sequence content
illumina metagenomic fastqc
2.7 years ago by khoojj ▴ 20
0
votes
0
replies
514
views
A question about Bioinformatik analysis and experimental design / comparing 2 experiments
DEseq2 Batch-effect
updated 2.7 years ago by 45k • written 2.7 years ago by • 0
4
votes
3
replies
1.4k
views
Is it possible to do bedtools multicov across the entire genome?
bedtools
updated 2.3 years ago by 45k • written 2.7 years ago by ▴ 250
0
votes
2
replies
1.1k
views
Index with unmasked or masked in HISAT2
masked HISAT2 toplevel unmasked
2.7 years ago by san96 ▴ 190
3
votes
3
replies
1.9k
views
How to enable multiple cores/threads for Bowtie2 or BWA using Macbook M2 chip?
mac bowtie2 bwa m2
updated 2.7 years ago by 154k • written 2.7 years ago by ▴ 140
4
votes
2
replies
1.3k
views
Obtaining every"Protein ID" from a genome in OMA
OMA orthologs
updated 2.7 years ago by ★ 1.1k • written 2.7 years ago by ▴ 10
2
votes
1
reply
813
views
Error, (in LoadSpliceMap) string to parse is too long
oma LoadSpliceMap omastandalone orthology
updated 2.7 years ago by ★ 1.1k • written 2.7 years ago by ▴ 10
0
votes
0
replies
829
views
Input data for LIMMA: unnormalised or vsn or other?
limma normalisation
updated 20 months ago by 45k • written 2.7 years ago by ▴ 350
0
votes
0
replies
625
views
question of exonerate output
protein gff exonerate annotation
2.7 years ago by TN • 0
1
vote
1
reply
887
views
Tripal installation question
BioDb Drush Tripal Drupal
2.7 years ago by alslonik ▴ 320
2
votes
2
replies
1.2k
views
Can Singularity be installed on a single-node server or does it have to be HPC?
Singularity
updated 2.7 years ago by ▴ 940 • written 2.7 years ago by • 0
0
votes
0
replies
470
views
Mis-paired primers
amplicon primers Mis-paired
2.7 years ago by Sara ▴ 10
0
votes
0
replies
452
views
show amplicon like exon in UCSC/IGV
amplicon
2.7 years ago by Sara ▴ 10
0
votes
3
replies
1.4k
views
scATAC-seq workflow
Signac scATAC-seq
updated 10 months ago by • 0 • written 2.7 years ago by ▴ 30
0
votes
0
replies
903
views
Set Y limits for ggplot with sec.axis
rstudio ggplot
2.7 years ago by JirMan ▴ 40
0
votes
1
reply
769
views
Filter InterProScan output for a specific function
interproscan annotation
updated 2.7 years ago by ★ 1.9k • written 2.7 years ago by • 0
0
votes
1
reply
885
views
f-index in treemix
treemix introgression f-index
2.7 years ago by kk.mahsa ▴ 150
0
votes
2
replies
1.2k
views
Network analysis for two Factors
chip-seq network-analysis
updated 2.1 years ago by 45k • written 2.7 years ago by ▴ 520
1
vote
2
replies
1.1k
views
Virtual box
virtual-machine offtopic
updated 2.1 years ago by 45k • written 2.7 years ago by • 0
0
votes
6
replies
2.1k
views
ceres score in crispr screen
ceres crispr ngs
updated 2.6 years ago by 45k • written 2.7 years ago by ▴ 60
3
votes
2
replies
3.1k
views
Error while trying to install salmon
software error assembly sequence genome
updated 2.7 years ago by ▴ 20 • written 5.0 years ago by ▴ 60
0
votes
2
replies
1.1k
views
Error running edgeR, plotting MDS and in model matrix
DEG
updated 2.6 years ago by 45k • written 2.7 years ago by • 0
0
votes
0
replies
642
views
Statistical test on two phylogenetically remote groups
phylogeny ANOVA
2.7 years ago by liorglic ★ 1.5k
122,019 results • Page 303 of 2441
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Comment: combine VCF from diploid reference/haplotypes for the same sample
Answer: HIV NL4-3 transcriptome fasta
ORFanage: by-reference protein annotation and comparison for transcriptome assembly
Mugsy Error: Can't find delta file....
A: Mugsy Error: Can't find delta file....
Answer: Variant Normalization
SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
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Recent Replies
Answer: Variant Normalization by Istvan Albert 103k
The purpose of normalization is to ensure that identical variants are represented identically. When not normalized, the same variants may …
Answer: Should differential expression analysis be incorporated in cross validation for by i.sudbery 22k
Yes, their would potentially be data leakage if you perform the DE before dividing your datasets into folds. Its unclear how much of a prob…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Istvan Albert 103k
I visited the website, but I couldn't understand what problem the software solves. You need to do a much better job of communicating the p…
Comment: Choosing enrichment analysis tool by i.sudbery 22k
How have these gene lists been obtained?
Comment: NOVOPlasty assembly fails with “INVALID SEED” using first read as seed by GenoMax 154k
> I used the first read sequence from ERR322446.filtered.A.fq as the seed `ERR322446` appears to be a human sample. Did you convert the …
Answer: Issue with Snippy 4.6.0 by GenoMax 154k
> Each individual Snippy run completes successfully and reports multiple variants When you run `snippy-core` there is no reference provid…
Comment: Quantification using salmon in alignment-based mode after minimap2 run by Assa Yeroslaviz ★ 1.9k
Hi Rob, sorry for the late question. I was wondering though, if I can also quantify transposable elements using oarfish? Should I increas…
Answer: 1 vs 1 DEG analysis in scrna seq data by ATpoint 89k
The only option you have is to treat every single cell as a replicate. That has the obvious downside that any effect can be a donor-unique …
Answer: GUI commercial software for 10x single cell gene expression analysis by firestar ★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome. by michael.ante ★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space? by lieven.sterck 16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Ram 45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by Edward • 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine by ATpoint 89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
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