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122,028 results • Page 581 of 2441
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3
votes
3
replies
2.6k
views
Trimmomatic error: cannot execute binary file: Exec format error
adapter trimmomatic fastq
updated 4.1 years ago by 103k • written 4.1 years ago by ▴ 80
4
votes
3
replies
2.7k
views
How to rename the elements in columns(txdb)?
GenomicFeatures GenomicRanges GenomeInfoDb
4.1 years ago by Pratik ★ 1.1k
0
votes
0
replies
611
views
Getting nucleotide frequencies per position
pysamstats
4.1 years ago by PluralizesEverythings • 0
7
votes
5
replies
7.9k
views
6 follow
Software recommendations for synteny analysis
synteny
updated 4.1 years ago by ▴ 940 • written 4.3 years ago by ▴ 60
0
votes
4
replies
1.6k
views
Allele frequency for genes
frequency gnomAD gene allele
4.1 years ago by luffy ▴ 130
2
votes
1
reply
976
views
Getting started with bioinformatics
courses books
updated 2.7 years ago by 45k • written 4.1 years ago by • 0
0
votes
0
replies
794
views
Should I convert the VCF file to MAF for visualizing my data?
lolliplot VCF oncoplt MAF
4.1 years ago by Zahra ▴ 110
0
votes
0
replies
799
views
validation of probable SNPs
imputation genotyping validation SNP
4.1 years ago by putty ▴ 40
2
votes
2
replies
1.7k
views
How to extract all sequences mapped to a transcript from Kallisto output
bam kallisto sam samtools
updated 4.1 years ago by 45k • written 4.1 years ago by ▴ 10
0
votes
0
replies
849
views
Convert between UCSC gene id(?) and gene symbol with bioconductor
annotation bioconductor
4.1 years ago by kevin.stachelek ▴ 80
0
votes
2
replies
1.8k
views
Annotate Structural variants with population specific allele frequency values
allele Structural_variation VEP frequency VCF
4.1 years ago by prasundutta87 ▴ 730
3
votes
2
replies
1.3k
views
TCGA data: low / high grade ovarian cancer
recout2 TCGAbiolinks TCGA R
4.1 years ago by erica.fary ▴ 20
0
votes
1
reply
887
views
Interpreting TFBS enrichment from random genomic regions
opossum meme homer transcription factor tfbs
updated 4.1 years ago by 89k • written 4.1 years ago by • 0
1
vote
3
replies
1.4k
views
synthetic samples for small datasets in bioinformatics
statistics ML
updated 2.7 years ago by 45k • written 4.1 years ago by • 0
0
votes
0
replies
737
views
How to plot the gap distribution of contigs wrt to reference genome
minia distribution minimap2 fasta plot
4.1 years ago by Ashi ▴ 20
1
vote
2
replies
1.0k
views
Gene with hundreds of counts very similar, is it possible to use it to get DEGs?
DEG Deseq2 similar couts
4.1 years ago by Anderson • 0
1
vote
0
replies
825
views
How to obtain zero-based coordinates read depth using bedtools coverage for a specific region?
bedtools coverage bed bam
4.1 years ago by vladimiralan ▴ 20
28
votes
14
replies
25k
views
13 follow
Quick Way To Combine Two Datasets Using Only Common Markers
plink
updated 3.1 years ago by 45k • written 12.9 years ago by ▴ 120
2
votes
2
replies
1.3k
views
Forum: Biostars metadata
Biostars metadata
4.1 years ago by grant.hovhannisyan ★ 2.6k
1
vote
4
replies
2.4k
views
MAPQ (Mapping quality) of 0 for most reads from BWA-MEM2 (with no secondary alignment or other apparent reason)
mapping bwa alignment genome sequencing
updated 4.1 years ago by 166k • written 4.1 years ago by ▴ 20
0
votes
1
reply
768
views
Research questions regarding WGS data from plant pathogens
genetics wgs minion
updated 2.7 years ago by 45k • written 4.1 years ago by • 0
0
votes
0
replies
1.3k
views
WNN in Seurat
Seurat Signac
updated 4.1 years ago by 13k • written 4.1 years ago by • 0
0
votes
0
replies
908
views
Job: Research Scientist- Bioinformatics & Computational Biology
machine-leaning
updated 2.7 years ago by 45k • written 4.1 years ago by • 0
3
votes
4
replies
4.2k
views
Searching expression for one particular gene in Seurat object issue (Seurat, R)
Seurat scRNA-seq R
updated 4.1 years ago by ★ 19k • written 4.1 years ago by ▴ 100
1
vote
0
replies
742
views
Tool: shell script to search txt in academic figures
search_txt_in_image.sh
4.1 years ago by Zhilong Jia ★ 2.2k
2
votes
1
reply
2.4k
views
RNAseq data mapping mostly to intergenic regions
highly degraded samples formalin-fixed RNAseq
updated 4.1 years ago by ▴ 650 • written 4.1 years ago by ▴ 10
0
votes
2
replies
1.9k
views
Visualization of GO results using enrichplot
R
updated 4.1 years ago by ▴ 40 • written 4.7 years ago by • 0
0
votes
1
reply
859
views
Trimmomatic error
Trimmomatic linux
updated 2.4 years ago by 45k • written 4.1 years ago by • 0
2
votes
4
replies
3.9k
views
Bacterial morphology details
bacteria shape respiration
updated 2.1 years ago by ★ 2.1k • written 10.8 years ago by ★ 1.6k
0
votes
0
replies
1.5k
views
Tool: Still Not Use QIIME2 for Amplicon Analysis? You’re OUT!
NGS Sequencing
updated 2.7 years ago by 45k • written 4.1 years ago by ▴ 510
0
votes
0
replies
931
views
ConsensusClusterPlus package
ConsensusClusterPlus cluter R
4.1 years ago by Mais • 0
0
votes
4
replies
4.6k
views
MCScanX empty collinearity file.
MCScanX gene duplication Collinear blocks
updated 4.1 years ago by • 0 • written 7.1 years ago by ▴ 60
0
votes
1
reply
1.7k
views
About R question: how to analyse the correlation between two datasets (corr.test and corrplot)
corrplot correlation matrix R
updated 4.1 years ago by ▴ 650 • written 4.1 years ago by • 0
0
votes
0
replies
625
views
Trouble running Cyclum for my scRNA-seq analysis
cell Cyclum scRNA-seq RNA-seq cycle
4.1 years ago by 23jinny • 0
1
vote
2
replies
3.2k
views
How do I perform a plot from admixture analysis with multiple runs
multiple admixture plot runs
updated 4.1 years ago by ▴ 20 • written 4.2 years ago by • 0
2
votes
2
replies
1.6k
views
Manhattan plot how to reduce space between axis and axis-labels
plot Manhattan
4.1 years ago by dominik.lagler ▴ 30
3
votes
3
replies
3.1k
views
Find Information about TCGA samples from GDC data portal
RNA-Seq TCGA GDC Sample information
updated 4.1 years ago by ▴ 30 • written 7.3 years ago by ▴ 70
0
votes
2
replies
1.1k
views
Iterate and extract data franes
dataframe list iteration
updated 3.0 years ago by 45k • written 4.1 years ago by ▴ 40
6
votes
4
replies
6.4k
views
Is there a way to convert “dist” to “data.frame”?
MDS ggplot2 RNAseq
4.1 years ago by Riku ▴ 80
1
vote
1
reply
797
views
read count to gene
Bedtools
updated 4.1 years ago by ★ 1.7k • written 4.1 years ago by ▴ 10
0
votes
1
reply
1.1k
views
SNP map in R
SNP map R
updated 4.1 years ago by ★ 1.1k • written 4.1 years ago by • 0
0
votes
19
replies
4.1k
views
Plant Genome Annotation
Genome Annotation
4.1 years ago by hafiz.talhamalik ▴ 350
0
votes
0
replies
736
views
Understanding degradome-seq result
degradome
4.1 years ago by I0110 ▴ 160
1
vote
2
replies
1.4k
views
Network analysis using distinct centrality measurements
measures analysis igraph STRING centrality Network PPI
4.1 years ago by rodolfo.peacewalker ▴ 390
0
votes
0
replies
867
views
How to get Read Counts from MACS2 output files?
ATAC-seq pileup narrowpeak readcounts MACS2
4.1 years ago by cthangav ▴ 110
1
vote
0
replies
751
views
How to proceed with multiple runs ChIP-seq
chipsamples seqruns chipseq sequencing chipseqanalysis
4.1 years ago by buffealo ▴ 130
1
vote
3
replies
2.1k
views
create protein database for local Blast
makeblastdb
updated 4.1 years ago by ★ 30k • written 4.1 years ago by • 0
0
votes
0
replies
729
views
How does PLINK work?
PLINK logisticRegression GWAS
4.1 years ago by L_to_the_m ▴ 10
2
votes
1
reply
945
views
How to create a new file containing contigs of a certain length from another contigs file
fasta minia
updated 2.6 years ago by 45k • written 4.1 years ago by ▴ 20
0
votes
0
replies
615
views
predixcan error
vcf predixcan
updated 2.6 years ago by 45k • written 4.1 years ago by ▴ 150
122,028 results • Page 581 of 2441
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Comment: Cells from normal sample were incorrectly classified as tumor cells using copyk by tujuchuanli ▴ 130
Since I'm running an automated pipeline to process multiple datasets, can I simply use the immune cells from CD45+ clusters in each dataset…
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I used 16Gb RAM, with `--threads 8` but both with and without `--threads` function took the same time. It produced 58Gb each pair so far. I…
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Thanks for the reply and suggestions. This software is a bit similar to galaxy. Recently, I am adding an application store for pipelines, s…
Answer: Modeling/simulations using SNPs data by Dave Carlson ★ 2.2k
I would recommend looking into using [SLiM][1] for forward-time population genetic simulations. It's widely used and very well documented, …
Answer: Strugling on the 3'rule of HGVS by Jeremy Leipzig 23k
> chrM : m.57T>TC, but according to the 3'rule it should be named m.60T>TC (if I understood correctly). no that cannot be shifted, like yo…
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This tool can be helpful: https://github.com/angelovangel/nanotimes
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This is an efficient tool: https://github.com/angelovangel/nanotimes
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Standard enrichement tools, like Metascape, Enrichr or David assume that under a model of no pathway being particularly involved in what yo…
Answer: Discrepancy in Q-score assessment of ONT reads in Nanopore and third-party softw by k-tarasov ▴ 10
Thanks to colindaven answer, I managed to travel by hyperlinks to the source of the discrepancy. It seems that Nanopore tools compute *ave…
Answer: Discrepancy in Q-score assessment of ONT reads in Nanopore and third-party softw by colindaven 8.0k
I agree completely. I think the cause is well discussed here : https://github.com/OpenGene/fastplong/issues/20 `fastplong` currently sti…
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Thank you for answer. No, I am looking at all reads before appllying any filters. There are 2,429,312 raw reads, and in 16s-wf pipeline I …
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Are you only looking at reads that satisfy this filter (which is in your command line in GitHub post) in your `seqkit` and `fastqc` reports…
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> data starting from Fastq Generally did this with the entire flowcell folder and not fastq files. The data needs to be demultiplexed in a…
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Your first command outputted SAM rather than BAM, and SAM without a header (no `-h`) option. If you used `-o contig_1.bam` it would have w…
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Seconding this, I also felt completely lost what this actually does. @OP, you need to learn to make sharp, concise bulletpoints advertising…
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