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121,991 results • Page 626 of 2440
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2
replies
2.4k
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Removing alternate alleles from .vcf
next-gen
updated 4.3 years ago by • 0 • written 6.6 years ago by ▴ 20
0
votes
0
replies
556
views
Mauve: "failed getting file size: value too large for defined data type"
Mauve
4.3 years ago by Ak ▴ 60
3
votes
2
replies
2.4k
views
Probe annotation file for microarray platform MoGene-1_0-st-v1
MoGene-1_0-st-v1 affymetrix probe annotation microarray
4.0 years ago by Pranshu Mehra • 0
5
votes
4
replies
3.7k
views
inflated QQ-PLOT
QQ-plot inflation plink GWAS
4.1 years ago by putty ▴ 40
0
votes
1
reply
1.2k
views
How to construct a Circos plot?
NGS
updated 4.3 years ago by ▴ 820 • written 4.3 years ago by ▴ 40
2
votes
7
replies
4.6k
views
FeatureCounts Output contains gene_id or transcript_id?
biomaRt DESeq FeatureCounts Annotation
4.3 years ago by Bane ▴ 30
6
votes
2
replies
3.3k
views
guppy graphic card
sequencing nanopore guppy cuda
updated 4.3 years ago by ▴ 30 • written 4.6 years ago by ▴ 10
1
vote
8
replies
2.8k
views
Visualization of RNA-SEQ Analysis
RNA-Seq sequence visualization next-gen
updated 4.3 years ago by 9.0k • written 4.3 years ago by ▴ 10
1
vote
1
reply
1.2k
views
Total Alignment: 0 /results of featureCounts RNA-Seq
Nanopore featureCounts HG38 Rna-Seq
4.3 years ago by santos48 ▴ 40
0
votes
0
replies
1.2k
views
Choosing an outgroup for analyses with OrthoFinder
orthologs phylogeny outgroup orthofinder
4.3 years ago by Dunois ★ 2.9k
4
votes
13
replies
2.9k
views
coverage vector file formats in R
ChIP-Seq vectors file_formats coverage R
updated 4.2 years ago by ★ 2.9k • written 4.3 years ago by ▴ 50
0
votes
1
reply
917
views
Stringtie. Issue running prepDE.py
prepDE.py stringtie
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
2
votes
1
reply
2.3k
views
Appropriate statistical test for comparing two samples in single-cell RNAseq
monocle3 expression differential single-cell rna-seq
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 380
0
votes
1
reply
1.5k
views
Histogram of Paired End Fragment Lengths
numpy python histogram
updated 4.3 years ago by ★ 1.5k • written 4.3 years ago by • 0
1
vote
1
reply
2.2k
views
what is the meaning of --dta paremeter used in the Hisat2 alignment?
Hisat2
updated 4.3 years ago by 45k • written 4.3 years ago by ▴ 80
3
votes
1
reply
1.5k
views
Calculate coverage
coverage
4.3 years ago by daewowo ▴ 80
0
votes
3
replies
3.5k
views
How to Install EasyCodeML on OSX
easycodeml selection codeml Java OSX
updated 4.3 years ago by ▴ 50 • written 4.4 years ago by ▴ 30
2
votes
2
replies
2.8k
views
Using Kallisto with unsupported single tech (Edited)
Kallisto
updated 4.3 years ago by ▴ 30 • written 4.3 years ago by ▴ 20
2
votes
6
replies
2.6k
views
sequencing adapter/ index when mixing two library preparation kit
adapter RNA-Seq illumina index
updated 4.3 years ago by 15k • written 4.3 years ago by ▴ 40
1
vote
1
reply
1.7k
views
HMM in Python
python HMM
updated 4.3 years ago by 56k • written 4.3 years ago by ▴ 140
0
votes
1
reply
1.4k
views
KEGG pathways with Blast2GO / OmicsBox
KEGG Blast2GO OmicsBox
updated 4.3 years ago by ★ 2.9k • written 4.3 years ago by • 0
0
votes
2
replies
1.0k
views
Corset error
Trinity Corset
updated 2.6 years ago by 45k • written 4.3 years ago by • 0
8
votes
3
replies
1.1k
views
High throughput protein structure homology prediction
tertiary protein high-throughput structure prediction
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 30
1
vote
2
replies
909
views
Sort blast result in format 6 by first column
blast unix commands Sort result
4.3 years ago by Elene • 0
0
votes
9
replies
2.0k
views
Join two files by matching columns
join linux
4.3 years ago by er.doug.ragnar ▴ 30
0
votes
1
reply
1.7k
views
Job: Post Doctoral fellow
Bioinformatician Postdoc virome
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
640
views
Collapse Repetitive FASTA sequence into unique one
mapping Element Repetitive
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
5
votes
3
replies
2.0k
views
bioawk looping to retrieve fasta sequences by seq ID pattern
regex fasta bioawk loop
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 20
3
votes
3
replies
2.0k
views
Best pre and post alignment / variant calling QC tools for many WGS/RNA samples 2021
fastq vcf bam
4.3 years ago by William ★ 5.4k
2
votes
7
replies
2.2k
views
Human genome hg19 variant calling with bcftools
bcftools samtools variant-calling
updated 2.8 years ago by 45k • written 4.3 years ago by • 0
0
votes
2
replies
1.5k
views
Subset cells by ADT expression
10x adt seurat
4.3 years ago by chi.delta ▴ 40
8
votes
5
replies
1.6k
views
Bioinformatics Definitions
genome
updated 4.3 years ago by ★ 2.9k • written 4.3 years ago by ▴ 70
0
votes
0
replies
648
views
GAPIT Genomic selection using ECMLM
GAPIT Genomic Selection
4.3 years ago by sssss • 0
0
votes
0
replies
1.6k
views
DiffBind Error in if (file.info(peaks)$size > 0) { : missing value where TRUE/FALSE needed
diffBind
4.3 years ago by alexmondaini ▴ 20
2
votes
1
reply
885
views
Extract locus length given locus accession number
genome ncbi API
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 120
0
votes
0
replies
601
views
Differential expression of microRNAs
Differentally microRNA expressed
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
7
replies
2.3k
views
Salmon Quant /SubRead featureCounts Results Total Aligments:0
Annotation Genome HG38 Rna-Seq SubRead
4.3 years ago by santos48 ▴ 40
0
votes
2
replies
1.5k
views
How to export a table from SAS software to Excel
SAS
updated 4.3 years ago by 166k • written 4.3 years ago by ▴ 20
0
votes
0
replies
761
views
Random effect with LMM in EWAS
LMM fixed-effect random-effect EWAS GWAS
updated 13 months ago by 45k • written 4.3 years ago by ▴ 30
1
vote
4
replies
1.7k
views
HISAT2 error message :Could not locate a HISAT2 index corresponding to basename "/mnt/c/mkr-index2/mm10_adera/genome"
hisat2
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 80
0
votes
0
replies
1.8k
views
Job: Research Scientist Bioinformatics (Germany, full-time, permanent)
research-scientist
updated 2.3 years ago by 45k • written 4.3 years ago by ▴ 120
0
votes
3
replies
1.8k
views
Discussion: Clinical genetics germline variants detection pipeline
NGS GATK clinical pipeline genetics
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 60
0
votes
0
replies
693
views
GATK SortSamSpark error: Failed to load org.broadinstitute.hellbender.Main
sortsamspark spark gatk
4.3 years ago by dragon940401 • 0
3
votes
2
replies
1.6k
views
How to activate and install bioinformatics software
Biostar-handbook
updated 2.7 years ago by 45k • written 4.3 years ago by ▴ 20
5
votes
6
replies
1.9k
views
Forum: Suggestion of Biostatistics book.
RNA-SEQ R Biostatics
updated 4.3 years ago by ★ 2.9k • written 4.3 years ago by ▴ 30
3
votes
2
replies
1.2k
views
How to know the positions of contigs in a reference genome
mapping positions alignment reference genome contigs
updated 4.3 years ago by 154k • written 4.3 years ago by ▴ 20
0
votes
0
replies
685
views
how can I analyse gender spesific CNV analysis with CNVkit?
diagram gender CNV CNVkit log2
4.3 years ago by enes ▴ 40
0
votes
4
replies
1.3k
views
extract the ids and key values
extract grep
updated 4.3 years ago by 9.3k • written 4.3 years ago by ▴ 80
0
votes
0
replies
903
views
liftover results usage: input bed file and output bed file have different rows, how can I link coordinates between input and output files?
unmapped liftover coordinates relationship
4.3 years ago by wangjinpeng0225 ▴ 30
2
votes
3
replies
3.0k
views
cutadapt: error: unused arguments //not recognizing my sequences when using a loop?
cutadapter
4.3 years ago by Kirsten • 0
121,991 results • Page 626 of 2440
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A: Trimmomatic Error: Unable to detect quality encoding
A: Trimmomatic Error: Unable to detect quality encoding
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions
Answer: TMM-Normalization
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Recent Replies
Comment: HIV NL4-3 transcriptome fasta by Ales ▴ 50
Hi, Wanted to update here that full transcriptome annotations for thousands of hiv genomes (including NL4-3) are now available at https://…
Answer: HIV NL4-3 transcriptome fasta by Ales ▴ 50
You can get full transcriptome annotation for the NL4-3 genomes: https://ccb.jhu.edu/HIV_Atlas/11676/AF324493.2 . Note the accession ID tho…
Answer: Doubt on docking by Mensur Dlakic ★ 30k
I think you are wrongly assuming that we can help you with this without knowing what is the protein of interest. A general answer is that …
Answer: Difficulty running FoldX in linux by Mensur Dlakic ★ 30k
The post looks much better now, so you did something. The preview here works fine. It simply can't be that the preview for your original po…
Comment: GUI commercial software for 10x single cell gene expression analysis by GenoMax 154k
Black box software has its cons but in instances like what OP needs that may be the only viable option. Their use limits reproducibility as…
Comment: downloading raw bam files from pacbio sequencer by GenoMax 154k
Have you checked : https://www.pacb.com/connect/datasets/
Comment: TMM-Normalization by kalavattam ▴ 380
No, but a modified version of TMM does: “GeTMM.” See the paper [here](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-0…
Comment: Difficulty running FoldX in linux by strayeroliver • 0
Responding to your answer. - I spent a lot of time formatting it just right, using the ``` methodology you mentioned. It looks very good o…
Comment: Nextflow MultiQC runs multiple times due to FASTQC zip name collisions by Phil Ewels ★ 1.5k
Found the docs: https://www.nextflow.io/docs/latest/process.html#multiple-input-files | Arity | Name pattern | Staged file names | |---|--…
Comment: Dorado in PowerShell on Windows by jared.andrews07 ★ 19k
No more than running it on native Linux (as that's what WSL is at this point).
Answer: SNP calling ONT sequenced files by colindaven 8.0k
The quality of (modern, SUP basecalled, but certainly not fast basecalled) ONT sequences should be fine, especially for bacterial SNP call…
Comment: SNP calling ONT sequenced files by GenoMax 154k
What is the median length of raw reads and how many do you have? Has the data been basecalled with "high" or "super" accuracy? > I have …
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere by GenoMax 154k
This question is about simulating reads and not read mapping.
Comment: GUI commercial software for 10x single cell gene expression analysis by yura.grabovska ▴ 830
I have fun memories of month-long discussions with Illumina support about their GenomeStudio methylation module asking them to provide info…
Comment: scVI vs Harmony, which is better for cell type based clustering in brain tissue? by Arup Ghosh 3.4k
Try the references from the following publications. https://www.nature.com/articles/s41591-024-03150-z https://www.science.org/doi/10.112…
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