Limit : this month
all time today this week this month this year
913 results • Page 1 of 19
Sort: Votes
Rank Views Votes Replies
18
votes
4
replies
8.1k
views
How To Find Rna-Seq Data Of Published Papers?
geo next-gen RNA-seq
updated 25 days ago by 38k • written 9.6 years ago by ▴ 930
14
votes
5
replies
2.7k
views
bioinformatics basic training
genome
updated 11 days ago by 38k • written 8.3 years ago by • 0
10
votes
6
replies
2.6k
views
which language to use for such a bioinformatics web services infrastructure?
web-services java
updated 3 days ago by 38k • written 7.8 years ago by ▴ 170
10
votes
15
replies
5.2k
views
convert fasta/gb to vcf
fasta vcf genbank gff
updated 2 days ago by 38k • written 4.5 years ago by ▴ 670
9
votes
16
replies
2.9k
views
6 follow
covert SAM to full length fasta
fasta SAM
updated 2 days ago by 38k • written 4.6 years ago by ▴ 670
9
votes
20
replies
3.2k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard SAM
updated 2 days ago by 38k • written 4.6 years ago by ▴ 670
8
votes
12
replies
2.4k
views
Use BLAST Command Line Applications to run a folder of many sequences against a database
BLAST
updated 7 days ago by 38k • written 19 months ago by ▴ 30
8
votes
25
replies
1.9k
views
construction of a database
sql noSQL neo4j database
updated 3 days ago by 38k • written 22 months ago by ▴ 20
7
votes
6
replies
1.3k
views
How to get/calculate coverage of a gene using bed file?
bed coverage gene
updated 2 days ago by 38k • written 16 months ago by ▴ 10
7
votes
4
replies
1.2k
views
So many Zeros (read counting)_NGS sequence analysis with R / Bioconductor: RNA-Seq workflow
alignment RNA-Seq R
updated 10 days ago by 38k • written 4.7 years ago by • 0
7
votes
4
replies
1.7k
views
useful and freely available softwares for Bioinformatics
software
updated 7 days ago by 38k • written 8.0 years ago by ▴ 920
7
votes
10
replies
1.1k
views
col as names [solved]
R
updated 7 days ago by 38k • written 4.0 years ago by ▴ 90
6
votes
11
replies
719
views
Calculate RPKM
RPKM
4 days ago by Chris ▴ 70
6
votes
13
replies
625
views
Error with STAR
STAR
updated 15 days ago by 38k • written 18 days ago by ▴ 70
6
votes
12
replies
1.2k
views
VCF files 101 - for people from non Bioinformatics Background
vcf sequencing genome variant-calling
updated 11 days ago by 38k • written 2.6 years ago by ▴ 20
6
votes
7
replies
825
views
to mark the duplicates
Assembly
updated 11 days ago by 38k • written 3.8 years ago by ▴ 10
6
votes
3
replies
3.1k
views
Comment On The Introduction Of A Bioinformatics Paper
publication bayesian-model
updated 18 days ago by 38k • written 9.0 years ago by ▴ 210
6
votes
6
replies
910
views
RNA-seq pipeline for degraded RNA
RNA-Seq degraded pipeline alignment
updated 19 days ago by ▴ 80 • written 2.2 years ago by ▴ 60
6
votes
9
replies
4.7k
views
Best Possible set of Python interview questions for Bioinformatics, that a recruiter can ask?
python
updated 4 days ago by 38k • written 7.9 years ago by ▴ 10
6
votes
6
replies
3.5k
views
Already Working In The Field Of Bioinformatics With A Bachelors, Is A Masters Degree Worth The Time?
masters career
updated 24 days ago by 38k • written 9.5 years ago by ▴ 30
6
votes
12
replies
1.1k
views
Good tutorials/textbooks/articles to introduce biomarker discovery to a biologist?
r biomarker
updated 7 days ago by 38k • written 4.2 years ago by ▴ 290
5
votes
6
replies
613
views
Filter out Bam not overlapping with Bed File (keeping a read and its mate)?
mates bed bam samtools
11 days ago by Eliveri ▴ 340
5
votes
6
replies
430
views
I can not allocate ram memory for WSL2
WSL2
10 days ago by ailton • 0
5
votes
4
replies
1.7k
views
MyVariant.info fields descriptions?
genome snp variant
updated 1 day ago by 38k • written 6.9 years ago by ▴ 90
5
votes
6
replies
2.9k
views
Changes log2FC values of DESeq2
log2FC DESeq2
updated 1 day ago by 38k • written 5.2 years ago by ▴ 30
5
votes
11
replies
3.0k
views
Convert Plink to Arlequin
software-error plink Arlequin PGDSpider
updated 10 days ago by 38k • written 4.9 years ago by ▴ 30
5
votes
4
replies
506
views
Converting Bam file to Fasta (Zipped)
samtools bamtofastq bedtools paired
11 days ago by Eliveri ▴ 340
4
votes
7
replies
2.0k
views
How to move the files from sub folder and sub-sub folders into one other folder?
bash
updated 2 days ago by 38k • written 21 months ago by ▴ 70
4
votes
4
replies
2.5k
views
What Statistical Test Is Appropriate When Comparing Rna-Seq Data Obtained From Biological Replicates Mapped To Different Genomes
RNA-seq
updated 29 days ago by 38k • written 10.2 years ago by ▴ 20
4
votes
3
replies
182
views
Geom bar postive and negative values in a flipped plot
flip_coord ggplot geom_bar
1 day ago by luzglongoria ▴ 40
4
votes
5
replies
520
views
Need help to perform survival analysis
survival analysis mirna
updated 12 days ago by ★ 23k • written 13 days ago by • 0
4
votes
3
replies
679
views
Bioinformatics courses online?
courses
updated 17 days ago by 38k • written 19 months ago by ▴ 50
4
votes
1
reply
312
views
Batch effect correction methods (Seurat v3, Harmony, fastMNN, Liger)
integration Batch seurat fastMNN Harmony
25 days ago by re_raz ▴ 50
4
votes
2
replies
905
views
Convert BAM files to GENOMEDATA files
BAM genomedata
updated 2 days ago by 38k • written 4.9 years ago by • 0
4
votes
9
replies
6.7k
views
bcftools consensus command
vcf bcftools
updated 2 days ago by 38k • written 3.2 years ago by ▴ 90
3
votes
5
replies
1.9k
views
Cellranger count command for single end fastq
RNA-Seq sequencing
updated 24 days ago by 38k • written 2.3 years ago by ▴ 40
3
votes
1
reply
2.1k
views
reference and effective allele
snp
updated 15 days ago by 38k • written 8.3 years ago by • 0
3
votes
4
replies
461
views
Genome Reference Consortium Human Build - Transcriptome Size Query
GRC
updated 7 days ago by 38k • written 10 months ago by • 0
3
votes
2
replies
504
views
[bam-readcount v.0.8.0] Fail to open BAM file –q
bam-readcount BAM
updated 2 days ago by 38k • written 22 months ago by ▴ 10
3
votes
4
replies
1.4k
views
How to get regions with mapped reads
bed bam RNA-Seq bedtools
updated 2 days ago by 38k • written 4.5 years ago by ▴ 100
3
votes
4
replies
255
views
Creating sample groups from a combination of genes for survival analysis
Survival
3 days ago by krushnach80 ★ 1.1k
3
votes
4
replies
326
views
How much reads per cell for fusion detection with Nanopore ?
single-cell fusion nanopore
1 day ago by Evan ▴ 180
3
votes
6
replies
1.7k
views
Methods and type datastructures use by Splign?
data-structure splign
updated 3 days ago by 38k • written 6.4 years ago by ▴ 160
3
votes
3
replies
395
views
SamSort gatk invalid argument / no space left on disk
picard gatk samsort nextflow
11 days ago by Eliveri ▴ 340
3
votes
0
replies
1.8k
views
Combined VCF file for all GTEx genotype calls?
GTExv7 GTEx Genotype dbGap VCF
updated 2 days ago by 38k • written 5.5 years ago by ▴ 60
3
votes
6
replies
4.3k
views
Why Do I Get A Makeblastdb Error: File Does Not Match Input Format Type, Default Input Type Is Fasta
genomics blast-plus
updated 23 days ago by 38k • written 9.3 years ago by ▴ 120
3
votes
4
replies
479
views
Changing Temporary File Location for Local BLASTP to nr Database
protein blast nr
updated 4 days ago by 38k • written 10 weeks ago by ▴ 20
3
votes
2
replies
204
views
correlations in R
cor R
2 days ago by rene.j.erhardt ▴ 20
3
votes
3
replies
336
views
Retrieving information from FASTA file
NGS FASTA VCF
updated 3 days ago by 38k • written 12 months ago by ▴ 10
3
votes
2
replies
347
views
A way to find which genome builds a package supports
Bioconductor genome R build
updated 13 days ago by 70k • written 14 days ago by • 0
913 results • Page 1 of 19
Recent Votes
A: microarray, RNAseq, CEL, edgeR, etc. for DGE analysis
Converting SNP from chr:pos to rs number using PLINK?
How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental Biologist/non-bioinformatician
Answer: Cellranger sequencing
Answer: Is it possible to do DGE analysis using log 2 normalized data with EdgeR ?
Answer: multiallelic variants
Comment: Python formatting when visualizing Primer3-py dimers
Recent Locations • All
United Kingdom, 8 minutes ago
São Paulo - Brazil - Unifesp, 11 minutes ago
Norway, 12 minutes ago
China, 13 minutes ago
China, 19 minutes ago
Germany, 22 minutes ago
Hong Kong, 23 minutes ago
Recent Awards • All
Popular Question to bitpir ▴ 210
Scholar to GenoMax 127k
Popular Question to randalljellis ▴ 90
Popular Question to RvV ▴ 10
Popular Question to farzaneafzali ▴ 70
Scholar to MirianT_NCBI ▴ 460
Popular Question to Ap1438 ▴ 50
Recent Replies
Comment: Remove part of headers in FASTA file by Pierre Lindenbaum 153k
Use `cut -d ' '`
Answer: Problem running interproscan-5.15-54.0 for protein sequences by Pratyay • 0
Hi, can you guide me how to compile the src folder? Many thanks!
Comment: Matching gene-expression data with clinical data: best practices. by krushnach80 ★ 1.1k
You can check [this][1] [1]: https://www.linkedomics.org/
Answer: Matching gene-expression data with clinical data: best practices. by jose.sgomez94 • 0
Figured out one can use the TCGAutils package in R and UUIDtobarcode() function. Still, suggestions of best practices would be awesome!
Answer: Understanding multifactor designs and control variables in DESeq2 by FrankStarling ▴ 50
https://bioinformatics-core-shared-training.github.io/cruk-summer-school-2021/RNAseq/Markdowns/10_DE_analysis_with_DESeq2.Solutions.html …
Answer: Is it possible to do DGE analysis using log 2 normalized data with EdgeR ? by Adaline.D • 0
I appreciate your help, LChart! I will use raw data in case of a substantial loss of power. (1) The publication did a PCA and then analy…
Answer: Is it possible to do DGE analysis using log 2 normalized data with EdgeR ? by LChart 2.2k
Short answer: use LIMMA Long answer: edgeR uses a negative binomial model, and expects *counts* and not *values*. Please read section 2.8.…
Comment: Python formatting when visualizing Primer3-py dimers by bhumm ▴ 30
Wayne, both of these methods work beautifully. I really appreciate the detail you provided, thank you so much for your help!
Comment: Ortholog assembly and extraction by dthorbur ▴ 420
I really like `orthofinder` and use it frequently, but there are also plenty of other tools out there. [Here](https://academic.oup.com/mbe/…
Comment: chloroplast genome gaps by ugur • 0
after alignment, it occurs in different sizes of gaps
Answer: Cellranger sequencing by ATpoint 70k
Not that I am aware of. Unlike methods such as salmon it does genome alignment and does not resolve the exact transcript expression composi…
Answer: Assembly at lineage level from shotgun data ? by Mensur Dlakic ★ 23k
The paper I list below is meant for improving the existing MAG assemblies. Yet the program will do what you want: if you give it a referenc…
Comment: Ortholog assembly and extraction by GenoMax 127k
Many seem to use `orthofinder` for this purpose. See if it is useful: https://github.com/davidemms/OrthoFinder
Answer: Python formatting when visualizing Primer3-py dimers by Wayne ★ 1.7k
Try this so you'll see that using [tabulate](https://github.com/astanin/python-tabulate) to print the dataframe causes it to respect the li…
Comment: Python formatting when visualizing Primer3-py dimers by bhumm ▴ 30
Glad I am making this more clear. The 'test1' in practice will be the 'primer name' to allow for tracking of other metrics (Tm, hairpin str…
Traffic: 949 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