Limit : all time
all time today this week this month this year
1,000 results • Page 1 of 20
Sort: Views
Rank Views Votes Replies
23
votes
22
replies
40k
views
6 follow
Converting VCF to PLINK .bed binary fileset to check for pedigree errors with KING: How do conversion tools make the PLINK .fam file, without asking …
plink vcf fam gatk vcftools
updated 6 months ago by • 0 • written 5.1 years ago by ▴ 250
4
votes
4
replies
35k
views
How to convert a URL into a DOI programmatically
pubmed doi url
written 6.7 years ago by ▴ 100
4
votes
13
replies
27k
views
6 follow
[main_samview] fail to read the header from sample.bam
alignment
updated 11 months ago by • 0 • written 5.3 years ago by ▴ 20
20
votes
15
replies
26k
views
8 follow
Converting SNP from chr:pos to rs number using PLINK?
plink SNP
updated 10 months ago by 39k • written 7.4 years ago by ▴ 190
4
votes
6
replies
24k
views
terminate called after throwing an instance of 'std::bad_alloc?
bedtools linux data
4.1 years ago by star ▴ 340
1
vote
3
replies
24k
views
How to extract vcf.gz and vcf.gz.tbi
SNP sequence gene
updated 4.9 years ago by 155k • written 4.9 years ago by ▴ 20
3
votes
4
replies
21k
views
Using nr database for BLAST search
nr database blast blastp
updated 6.8 years ago by 20 • written 6.9 years ago by ▴ 20
9
votes
4
replies
21k
views
What is the definition of "read depth" vs "coverage"? (again...)
coverage depth read depth
6.1 years ago by ariel.balter ▴ 200
2
votes
4
replies
20k
views
Error in file(file, "rt") : cannot open the connection
R MicroRNA TXT FORMAT
updated 7.2 years ago by 130k • written 7.2 years ago by • 0
1
vote
5
replies
18k
views
Calculating the sequence similarity and percentage of matched sequences
alignment sequence
updated 5.5 years ago by • 0 • written 5.6 years ago by ▴ 10
7
votes
16
replies
18k
views
featureCounts: Low percentage of assigned fragments
RNA-Seq rna-seq
6.9 years ago by aggregatibacter ▴ 180
27
votes
17
replies
18k
views
12 follow
Dotplot for filtered pathways result
pathways ggplot2 clusterProfiler r dotplot
18 months ago by Leite ★ 1.2k
2
votes
8
replies
17k
views
Using vcfutils.pl command
alignment
updated 13 months ago by 39k • written 8.3 years ago by ▴ 40
2
votes
10
replies
16k
views
How do you use the Aspera ascp command?
aspera gigascience gigaDb
updated 21 months ago by 39k • written 7.7 years ago by ▴ 940
2
votes
3
replies
16k
views
Subsetting - Raw Counts from Seurat Object
seurat raw counts RNA-Seq
3.1 years ago by David_emir ▴ 460
16
votes
38
replies
16k
views
Differential gene Analysis by Limma
Limma Microarray R
updated 13 months ago by 39k • written 8.3 years ago by ▴ 920
2
votes
13
replies
16k
views
convert text file to fasta file
blast
updated 6.8 years ago by 12k • written 6.8 years ago by ▴ 30
6
votes
2
replies
15k
views
Pacbio Ccs Vs Subreads Explained ?
updated 9.1 years ago by 20 • written 9.6 years ago by ▴ 40
0
votes
8
replies
15k
views
find ORF in sequence python
sequence
updated 6.5 years ago by ★ 3.9k • written 6.5 years ago by ▴ 120
2
votes
2
replies
15k
views
How to calculate the insert size for Paired-end reads
SSPACE insert-size
6.9 years ago by Ric ▴ 430
5
votes
4
replies
14k
views
glmnet package lasso error
glmnet lasso multilinear regression
5.3 years ago by demoraesdiogo2017 ▴ 90
4
votes
10
replies
14k
views
How to plot a multiple line graph with Mean and Std Error for following dataset?
R
updated 5.1 years ago by 130k • written 5.1 years ago by ▴ 720
16
votes
14
replies
14k
views
Which truseq trimmomatic adapters file to use when removing truseq adapters?
adapters trimmomatic RNA-seq
5.0 years ago by salamandra ▴ 540
0
votes
3
replies
14k
views
How to choose a TPM cut-off point
RNA-Seq transcript tpm
updated 9 months ago by 39k • written 7.6 years ago by ▴ 10
2
votes
4
replies
14k
views
TRIMMOMATRIC Nextera trimming
next-gen
updated 7 months ago by 39k • written 7.9 years ago by ▴ 10
0
votes
3
replies
14k
views
Error in (function (classes, fdef, mtable): unable to find an inherited method for function ‘annotation’ for signature ‘"character
inSilicoMerging
9.0 years ago by ira_grich • 0
3
votes
1
reply
14k
views
How do you normalize Transcript per Million TPM to compare between samples ?
RNA-Seq TPM STAR salmon quantification
6.4 years ago by ZheFrench ▴ 520
1
vote
8
replies
14k
views
HTSeq-count high number of no_feature
htseq-count rna-seq
updated 13 months ago by 39k • written 8.3 years ago by ▴ 80
7
votes
4
replies
13k
views
Use of if-else statement in snakemake rule
snakemake if-else python
updated 3.6 years ago by • 0 • written 5.9 years ago by ▴ 130
1
vote
5
replies
13k
views
pheatmap: how to use legend information as row annotation?
R pheatmap legend annotation
5.2 years ago by n85825 • 0
9
votes
13
replies
13k
views
GC Content of Fasta file --- Python Help
sequence
6.3 years ago by Patrick Brennan ▴ 50
13
votes
13
replies
13k
views
How to interpret Per sequence GC content module in FastQC for RNA-seq data?
RNA-Seq FastQC QC GC-content
3.8 years ago by Arindam Ghosh ▴ 500
3
votes
8
replies
13k
views
Error when running pheatmap
pheatmap Error in hclust
4.2 years ago by luzglongoria ▴ 40
8
votes
5
replies
13k
views
The comparison between HISAT2 and Tophat2
RNA-Seq Tophat2 HISAT2
updated 4.8 years ago by 39k • written 7.3 years ago by ▴ 50
0
votes
2
replies
13k
views
Error in -delete: invalid argument to unary operator
RNA-Seq R
3.3 years ago by ovariohisterectomia ▴ 40
6
votes
13
replies
13k
views
Fastq file is truncated error message
RNA-Seq error fastq
7.0 years ago by rob.costa1234 ▴ 310
4
votes
1
reply
13k
views
Converting BigBed to Bed format
Installing BigFile Support
8.0 years ago by sumaira.zaman10 ▴ 20
0
votes
2
replies
13k
views
How to download pfam database
sequence
updated 6.4 years ago by 9.6k • written 6.4 years ago by ▴ 30
4
votes
18
replies
13k
views
Alignment with BWA and SAMtools
BWA SAM-file SAMtools
updated 2.6 years ago by 20 • written 4.8 years ago by ▴ 30
6
votes
13
replies
12k
views
Showing FDR and log2FC in Volcano plot using R
R RNA-Seq volcano plot
updated 4.0 years ago by 11k • written 5.5 years ago by ★ 3.4k
9
votes
13
replies
12k
views
Sort bam file by coordinates using samtools
sequencing next-gen gene rna-seq Tool
updated 4.7 years ago by 16k • written 4.7 years ago by ▴ 30
0
votes
4
replies
12k
views
Unable to install XLconnect package in R studio version 3.2.1
R
updated 8 months ago by 39k • written 7.8 years ago by ▴ 10
3
votes
11
replies
12k
views
What is the acceptable % of reads that map to no feature (in RNASeq)?
htseq RNA-Seq STAR
updated 14 months ago by 39k • written 8.4 years ago by ▴ 120
2
votes
4
replies
12k
views
Run BLAST on Linux terminal
ncbi nBLAST linux blast
updated 9 months ago by 39k • written 7.7 years ago by ★ 1.2k
1
vote
2
replies
12k
views
kart file in prefetch
rna-seq
updated 6.6 years ago by 20 • written 6.8 years ago by ▴ 20
0
votes
3
replies
12k
views
How to change/remove name of annotation ComplexHeatmap package?
ComplexHeatmap R RNA-Seq annotations
updated 3.0 years ago by 39k • written 3.0 years ago by ▴ 130
0
votes
2
replies
12k
views
GSEA error - After pruning, none of the gene sets passed size thresholds
RNA-Seq GSEA gene genome
updated 3.9 years ago by ▴ 340 • written 3.9 years ago by • 0
0
votes
1
reply
12k
views
PLINK 1.9 - Converting PED/MAP to BED/BIM/FAM with missing values
plink
updated 6.9 years ago by 20 • written 6.9 years ago by ▴ 90
4
votes
12
replies
12k
views
STAR alignment error- Segmentation fault (core dumped)
alignment software error RNA-Seq STAR
4.9 years ago by EagleEye 7.5k
2
votes
1
reply
11k
views
Rename Idents in Seurat Object
RNA-Seq
3.1 years ago by Thorerges ▴ 10
1,000 results • Page 1 of 20
Recent Votes
Answer: Why some insertions are symbolic in ALT column?
Answer: featureCounts Output "The reads are assigned on the single-end mode"
Answer: HTSeq count stranded setting
Answer: Salmon Index
Answer: Solving environment: failed with initial frozen solve. Retrying with flexible so
Answer: Solving environment: failed with initial frozen solve. Retrying with flexible so
Comment: Solving environment: failed with initial frozen solve. Retrying with flexible so
Recent Locations • All
France/Nantes/Institut du Thorax - INSERM UMR1087, just now
Mexico, 1 minute ago
France, 16 minutes ago
United States, 16 minutes ago
United Kingdom, 16 minutes ago
Whitefish, MT, 23 minutes ago
Canada, 27 minutes ago
Recent Awards • All
Teacher to Jeremy Leipzig 21k
Scholar to GenoMax 130k
Popular Question to ashleymb1116 • 0
Supporter to bioinfo223 ▴ 10
Popular Question to kenneditodd ▴ 10
Popular Question to predeus ★ 1.9k
Popular Question to jobs • 0
Recent Replies
Comment: Why some insertions are symbolic in ALT column? by Maxine • 0
sounds great! waiting for your findings~
Comment: Why some insertions are symbolic in ALT column? by Maxine • 0
thank you for sharing your experience!
Comment: What are your preferred programs for processing DNA long reads? (de novo assembl by Medhat 9.6k
There is already an article about the topic that was recently published (I was one of the individuals approached to contribute to this arti…
Comment: Is there a file format better suited for the era of pangenomics than the .vcf? W by Vincent Laufer ★ 3.0k
Apologies - my email address and twitter are listed on my profile page.
Comment: multiqc: group samples by population + boxplot ? by Pierre Lindenbaum 155k
It worked by parsing a first run of multiqc, extract the data from the sanitised data , create a SVG plot with R, include the SVG into a fi…
Comment: Solving environment: failed with initial frozen solve. Retrying with flexible so by Ahmed ▴ 10
thanks, bro I get the solve of my problem by installing new environment and reinstalling samtools software again.
Comment: Solving environment: failed with initial frozen solve. Retrying with flexible so by Ahmed ▴ 10
Thanks for telling me that, and i apologize for bad explanation because I am beginner user with the site!
Comment: amrfinder not working on loop? by Pierre Lindenbaum 155k
what is the output of the following commands: ls -lah '/home/bvs/neelam/AMRFINDER_hypo/hypothetical_analysis/P_aeruginosa_RP73.fasta' …
Comment: amrfinder not working on loop? by GenoMax 130k
> Cannot open file > '/home/bvs/neelam/AMRFINDER_hypo/hypothetical_analysis/P_aeruginosa_RP73.fasta' Looks like either the file path is in…
Comment: R ggplot by Ram 39k
Is "R ggplot" the most concise/descriptive title you can use?
Answer: Solving environment: failed with initial frozen solve. Retrying with flexible so by Ram 39k
1. `bioconda` is a conda channel, not a command. I'm surprised it executes some sort of binary - what is the output of `alias bioconda` and…
Comment: Solving environment: failed with initial frozen solve. Retrying with flexible so by Ram 39k
Use proper tags - in your previous post, you pasted the question text in the tag field and here, your tag is `nothing`. Use relevant tags (…
Comment: hisat2-align exited with value 1 by Ahmed ▴ 10
thanks man <3 you saved me!!
Comment: no output from GATK CombineGVCFs by Pierre Lindenbaum 155k
> The number of gVCFs in the list has a hard limit no, I don't think so. But if you have 10000 VCFs, you should combine 100x100 VCFS and …
Comment: novel miRNA naming(annotation) by kuttibiotech2009 ▴ 30
Do you have any idea about it?. I also want to do the same.
Traffic: 975 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6