Limit : all time
all time today this week this month this year
116,988 results • Page 3 of 2340
Sort: replies
Rank Views Votes Replies
66
votes
43
replies
27k
views
23 follow
Ngs - Huge (Fastq) File Parsing - Which Language For Good Efficiency ?
next-gen sequencing parsing fastq programming
updated 2.3 years ago by 43k • written 13.3 years ago by ★ 2.2k
16
votes
43
replies
6.8k
views
Stuck on calculating principal components
Vegan R software error SNP
updated 6.5 years ago by ▴ 280 • written 6.5 years ago by ★ 4.3k
8
votes
42
replies
4.7k
views
NaS (Nanopore Synthetic-long) help
Assembly preprocessing
updated 16 months ago by 43k • written 8.9 years ago by ▴ 290
11
votes
42
replies
4.2k
views
over presented kmer in fastq
fastqc RNA-Seq
6.6 years ago by Sam ▴ 150
103
votes
42
replies
31k
views
34 follow
Forum: List of cloud genomics companies
cloud-genomics
updated 5 weeks ago by 22k • written 10.5 years ago by ★ 3.6k
138
votes
42
replies
22k
views
22 follow
Forum: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
meta
updated 13 months ago by 4.2k • written 10.9 years ago by ★ 1.6k
28
votes
42
replies
7.2k
views
7 follow
How to add tophat and bowtie to the path?
export PATH bowtie2.2.9 tophat2
7.4 years ago by mirza ▴ 180
57
votes
42
replies
6.7k
views
12 follow
Forum: Why is academic software hard to install?
software-installation
updated 2.3 years ago by 43k • written 9.6 years ago by 33k
151
votes
42
replies
180k
views
22 follow
How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
heatmap r
updated 24 months ago by 43k • written 12.2 years ago by 20k
23
votes
41
replies
4.5k
views
6 follow
I want to correct the erroneous barcode file, and the Python code that I've written, using Biopython, is very slow. How can I make this process fast…
NGS biopython illumina WGS
updated 12 months ago by 43k • written 13 months ago by ▴ 30
13
votes
41
replies
2.4k
views
Is my file created completely
sam BWA-MEM BWA
updated 14 months ago by 43k • written 7.0 years ago by ▴ 10
98
votes
41
replies
6.2k
views
17 follow
Forum: I am really pissed off by the bioinformatics software world. Do/can we have a better solution?
software-error next-gen-sequencing
updated 13 months ago by 43k • written 7.7 years ago by ▴ 510
18
votes
41
replies
14k
views
6 follow
paired end illumina reads
Assembly paired end
updated 22 months ago by 43k • written 8.6 years ago by ▴ 290
203
votes
41
replies
25k
views
20 follow
Forum: Genomics is not Special. Computational Biologists are reinventing the wheel for big data biology analysis
genomics cram gatk galaxy
updated 15 months ago by 43k • written 9.5 years ago by ★ 5.3k
171
votes
41
replies
98k
views
27 follow
Multiline Fasta To Single Line Fasta
fasta
updated 7 months ago by 43k • written 12.9 years ago by ▴ 250
38
votes
41
replies
60k
views
9 follow
Volcano Plot from DEseq2
R
written 6.5 years ago by ★ 1.2k
5
votes
41
replies
3.0k
views
Insert sequence in nt database
nt
4.0 years ago by anasofiamoreira94 ▴ 80
16
votes
41
replies
9.6k
views
How to extract information from headers of fasta file
sequence
updated 23 months ago by 43k • written 9.2 years ago by ▴ 70
26
votes
41
replies
17k
views
10 follow
WGCNA modules and categorical traits relationship
WGCNA
updated 18 months ago by • 0 • written 6.3 years ago by ▴ 120
31
votes
41
replies
2.7k
views
12 follow
Forum: Question regarding journal publications
publications journals
updated 11 months ago by 43k • written 4.2 years ago by ▴ 40
19
votes
41
replies
9.2k
views
7 follow
n.sv number for batch effects in RNA-seq
RNA-Seq
updated 6.7 years ago by ★ 5.2k • written 6.7 years ago by ▴ 80
18
votes
41
replies
3.6k
views
6 follow
Convert amino acid sequences into nucleotide sequences
nucleotide protein
updated 5 months ago by 21k • written 7 months ago by ▴ 40
18
votes
40
replies
18k
views
16 follow
Tutorial: Easy way to run easily orthoMCL (Copy & paste)
all-v-all orthomcl
updated 3.9 years ago by • 0 • written 7.9 years ago by ▴ 170
40
votes
40
replies
11k
views
9 follow
What is the reason for trimming reads to 30 bp for ATAC-seq aligning?
ATAC-seq alignment
updated 6.2 years ago by 88k • written 7.6 years ago by ▴ 560
6
votes
40
replies
11k
views
Fastx_Collapser Has No Fastq Output
fastx RNA-seq
updated 14 months ago by 43k • written 10.7 years ago by ▴ 240
67
votes
40
replies
9.7k
views
12 follow
Forum: I want to re-open the old debate: python or perl ?
perl python
updated 2.2 years ago by 43k • written 9.5 years ago by ★ 2.9k
68
votes
40
replies
6.5k
views
11 follow
Can We Agree On A Short Twitter Hashtag For Nextgen Sequencing?
next-gen sequencing sequencing
updated 12.6 years ago by ▴ 310 • written 12.6 years ago by ★ 1.3k
16
votes
40
replies
6.3k
views
About TCGA CNV data preprocessing
SNP CNV
updated 5.6 years ago by 88k • written 5.6 years ago by ▴ 50
10
votes
40
replies
6.6k
views
weird insert size post trimming
RNA-Seq
updated 6.7 years ago by ★ 2.9k • written 6.8 years ago by ▴ 290
151
votes
39
replies
25k
views
20 follow
Forum: A Farewell To Bioinformatics
bioinformatics
updated 14 months ago by 43k • written 11.3 years ago by 3.0k
20
votes
39
replies
9.9k
views
7 follow
Is Blast+ Running As Fast As It Could ?
blast blast memory
updated 8.6 years ago by ▴ 170 • written 12.3 years ago by ▴ 160
25
votes
39
replies
5.9k
views
8 follow
Forum: Bioinformatics Study Group
study-group
updated 14 months ago by 43k • written 10.9 years ago by ▴ 440
11
votes
39
replies
4.2k
views
Any advice for a de novo genome assembly
k-mer de novo genome assembly
updated 7.5 years ago by ▴ 60 • written 7.5 years ago by ▴ 640
98
votes
39
replies
158k
views
19 follow
Extract Reads From A Bam File That Fall Within A Given Region
bam
updated 13 months ago by ▴ 180 • written 11.9 years ago by ▴ 390
55
votes
39
replies
5.8k
views
8 follow
Programming Challenge - Synthetic Whole Genome Vcf
vcf python perl awk
updated 11.7 years ago by 8.3k • written 11.7 years ago by ▴ 310
69
votes
39
replies
4.7k
views
14 follow
Forum: Preparation for Bioinformatics.SE closing
meta biostars
updated 12 months ago by 43k • written 7.0 years ago by 13k
288
votes
39
replies
184k
views
29 follow
Tutorial: How to download raw sequence data from GEO/SRA
fastq SRA bam GEO
updated 13 months ago by 43k • written 9.7 years ago by 20k
36
votes
39
replies
4.2k
views
11 follow
Forum: Survey/Vote: If you could double the speed of any three commandline tools, which three would they be?
blast RNA-Seq alignment next-gen-sequencing
updated 12 months ago by 43k • written 6.5 years ago by ▴ 130
18
votes
39
replies
4.3k
views
Tool: CBioInfCpp.h as a C++ lib containing some functions for bioinformatics
cpp
updated 12 months ago by 43k • written 5.1 years ago by ▴ 50
66
votes
39
replies
7.5k
views
13 follow
What Do You Consider The Most Trivial And The Most Challenging Tasks In Your Particular Field Of Work?
career subjective
updated 3.1 years ago by 43k • written 14.2 years ago by ▴ 310
226
votes
39
replies
288k
views
33 follow
Gene Id Conversion Tool
david
updated 7 months ago by 43k • written 14.6 years ago by ▴ 620
81
votes
39
replies
7.6k
views
11 follow
News: State Of Biostar - Future Directions (January 2013)
biostars
updated 15 months ago by 43k • written 11.4 years ago by 100k
78
votes
38
replies
33k
views
15 follow
Illumina Instrument Type from fastq?
fastq
updated 10 weeks ago by ▴ 60 • written 7.9 years ago by 6.6k
231
votes
38
replies
146k
views
29 follow
Tool: Converting Genome Coordinates From One Genome Version To Another (Ucsc Liftover, Ncbi Remap, Ensembl Api)
ensembl genome-coordinates liftover
updated 11 months ago by 43k • written 11.2 years ago by 20k
16
votes
38
replies
17k
views
Differential gene Analysis by Limma
Limma Microarray R
updated 2.1 years ago by 43k • written 9.2 years ago by ▴ 920
27
votes
38
replies
20k
views
Heatmap based with FPKM values
RNA-Seq next-gen R
updated 5.0 years ago by 20 • written 6.5 years ago by ▴ 820
53
votes
38
replies
4.6k
views
10 follow
Multiple alignment software
alignment clustal omega tcoffee
updated 4.7 years ago by 100k • written 4.7 years ago by ▴ 130
129
votes
38
replies
8.3k
views
21 follow
Forum: Who are the Greatest Bioinformaticians Of All Time (GBOAT)
bioinformatics
updated 11 months ago by 43k • written 5.1 years ago by 100k
48
votes
38
replies
17k
views
8 follow
Forum: Eukaryotic Genome Annotation in 2016
software genome annotation
updated 13 months ago by 43k • written 8.2 years ago by 11k
39
votes
38
replies
9.1k
views
9 follow
DNA composition - all k-mers and their frequency in some sequencing data
sequencing
updated 21 months ago by 43k • written 8.5 years ago by 13k
116,988 results • Page 3 of 2340
Recent Votes
Comment: switch off warning in blast command line
Forward And Reverse Strand Conventions
Answer: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
Comment: Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Answer: Details on salmon index
ATAC-seq sample normalization
Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
Recent Locations • All
San Francisco, 3 minutes ago
India, 6 minutes ago
Germany, 8 minutes ago
Taiwan, 9 minutes ago
Bologna, 9 minutes ago
India, 10 minutes ago
India, 10 minutes ago
Recent Awards • All
Teacher to Rob 6.6k
Popular Question to Nyksubuz ▴ 10
Popular Question to Govardhan Anande ▴ 150
Popular Question to Lhl ▴ 760
Popular Question to Takuma ▴ 20
Popular Question to BATMAN • 0
Teacher to dario.garvan ▴ 520
Recent Replies
Comment: BiomartException: Query ERROR for existing dataset in BioMart by Nyksubuz ▴ 10
The dataset you want (taestivum_eg_gene) exists within the "plants_mart" schema, not the default schema. Your current code assumes the defa…
Comment: Add line under stat test by Nyksubuz ▴ 10
You could use [this][1] [1]: https://ggplot2.tidyverse.org/reference/geom_segment.html
Comment: API kegg - IndexError: list index out of range by Nyksubuz ▴ 10
It might be because the gene symbol is not found in the KEGG database. Add some extra error handling before parsing the results or do a man…
Comment: Sam file Header problem by saifulislam99121 • 0
Thank you for your reply. I am not very much sure about this RG. Can you explain me a bit?
Comment: GRIDSS: the Genomic Rearrangement IDentification Software Suite by dario.garvan ▴ 520
It seems that Alexandrov's [structural variant and copy number signatures][1] estimated by the [SigProfiler software ecosystem][2] aren't c…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by GenoMax 142k
Then you may want to see if a program like `lastz` ([**LINK**][1]) may be useful. [1]: https://github.com/lastz/lastz
Comment: Collect dispersed executable files and run them by using bingo. by Ram 43k
What is the purpose of this tool? I have `~/bin` in my $PATH and I soft-link all executables I need to that location so why install a new t…
Comment: Merge clusters in Seurat UMAP by bk11 ★ 2.4k
Can you try this? library(dplyr) seuratobj@meta.data <- seuratobj@meta.data %>% mutate(seurat_clusters = recode(seurat_clu…
Comment: Merge clusters in Seurat UMAP by kilcdincer ▴ 10
Thank you for the response but it does not change anything.
Comment: Merge clusters in Seurat UMAP by bk11 ★ 2.4k
I have not tested but you could try something like below- seuratobj$seurat_clusters[seuratobj$seurat_clusters==5]=0 seuratobj$seur…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
I know about it, isn't there a simple C++ static binary?
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
needle is great! but it does not handle sequences of 100k or so.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU by Ram 43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction by txema.heredia ▴ 130
The point is that you need to feed the ambient algorithm a clustering list as input. This way, it checks for genes present in the soup vs g…
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i by swbarnes2 14k
Wait, so the magnitudes of the PCs are in the thousands? That's not normal for RNASeq.
Traffic: 1510 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