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1,000 results • Page 4 of 20
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63
votes
27
replies
26k
views
18 follow
Data Too Big To Be Stored In Memory: Common Options
python
updated 7 months ago by 40k • written 10.9 years ago by ▴ 720
30
votes
27
replies
2.3k
views
11 follow
Forum: How do you spend your time (productively) when your script is running?
time-management
updated 5 months ago by 40k • written 6.6 years ago by 7.1k
97
votes
27
replies
82k
views
21 follow
Extract Sub-Set Of Regions From Vcf File
vcf tabix genome filter
updated 4 months ago by • 0 • written 11.3 years ago by ▴ 820
41
votes
27
replies
5.3k
views
8 follow
Forum: Why bioinformaticians need to know programming languages?
Python R Programming
updated 4 months ago by 40k • written 6.3 years ago by ▴ 90
24
votes
26
replies
1.9k
views
6 follow
Forum: Organizing a Bioinformatics Conference ?
meeting conference
updated 4 months ago by 40k • written 5.9 years ago by 157k
5
votes
26
replies
6.5k
views
Pre-computed list of genes in LD with a SNP with r2 from 1000Genomes / hg19
genomics snp ld
updated 9 months ago by 40k • written 9.1 years ago by 18k
136
votes
26
replies
24k
views
14 follow
Best Way For A Beginner To Get Up To Speed On Unix Quickly?
unix perl genomics
updated 7 months ago by 40k • written 11.7 years ago by ▴ 300
37
votes
26
replies
4.2k
views
7 follow
Ngs Challenge: Can You Give An Insight About This Imaginary Genetic Disease ?
next-gen-sequencing
updated 7 months ago by 40k • written 11.8 years ago by 157k
105
votes
26
replies
40k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation domain r
updated 12 days ago by 11k • written 10.7 years ago by ▴ 810
47
votes
26
replies
3.5k
views
11 follow
Blog: Evolution of Biostars
meta Biostars
updated 5 weeks ago by ▴ 70 • written 4.6 years ago by 7.1k
65
votes
26
replies
18k
views
13 follow
Forum: Macosx For Bioinformatics?
linux
updated 7 months ago by 40k • written 9.8 years ago by 11k
9
votes
26
replies
8.8k
views
GREP: out of memory
Deseq2 macOS gff HEloci
updated 6 months ago by 40k • written 5.2 years ago by ▴ 110
71
votes
26
replies
26k
views
15 follow
Tutorial: How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 7 months ago by 40k • written 9.6 years ago by 98k
4
votes
26
replies
16k
views
10 follow
ADMIXTURE and R, color meaning on barplot in studing population ancestry, K value
R gene
updated 7 months ago by • 0 • written 8.1 years ago by ▴ 20
17
votes
26
replies
1.8k
views
File conversion in bash, discrepancy in number of lines after conversion.
bash
updated 6 months ago by 40k • written 3.4 years ago by ▴ 380
118
votes
26
replies
34k
views
22 follow
Transcript to gene level count for DEseq(2) use- Salmon/Sailfish/Kallisto etc.
DESeq Kallisto RNASeq Salmon DESeq2
updated 6 months ago by ▴ 80 • written 8.4 years ago by ▴ 610
6
votes
26
replies
8.7k
views
Realign BAM files to other reference file
bam samtools
updated 6 months ago by 40k • written 5.2 years ago by ▴ 690
8
votes
26
replies
4.0k
views
Fasta sequence replacement based on header name
alignment Assembly sequencing RNA-Seq
updated 9 months ago by 40k • written 8.3 years ago by ★ 1.8k
65
votes
26
replies
13k
views
11 follow
Tutorial: Generating consensus sequence from bam file
fasta consensus bam
updated 6 months ago by 40k • written 4.6 years ago by 16k
20
votes
26
replies
2.6k
views
Is there a command line tool that can take an alignment fasta and input and outputs an image?
alignment fasta image
updated 8 weeks ago by 21k • written 4.3 years ago by ▴ 180
25
votes
26
replies
3.4k
views
warning in R
R
updated 8 months ago by 40k • written 8.3 years ago by ★ 4.2k
64
votes
26
replies
12k
views
7 follow
Tutorial: Parallel processing in R
biocparallel mclapply foreach R
updated 6 months ago by 40k • written 6.0 years ago by 86k
33
votes
26
replies
3.2k
views
7 follow
Forum: Poll: How many people have PyPy?
pypy python
updated 5 months ago by 40k • written 7.6 years ago by 13k
171
votes
26
replies
7.3k
views
12 follow
How Do You Acknowledge Biostar And Its Contributors In Your Research Output?
meta biostars
updated 7 months ago by 40k • written 12.6 years ago by 3.2k
18
votes
26
replies
15k
views
16 follow
bedtools coverage gives error received illegal bin number, but that number isn't in my data!
ChIP-Seq bedtools
updated 8 months ago by 40k • written 6.6 years ago by ▴ 40
24
votes
26
replies
3.1k
views
Tool: ClinCNV: CNV detection from short reads
variant-calling cna cnv
updated 3 months ago by 40k • written 4.0 years ago by ★ 2.9k
34
votes
26
replies
15k
views
13 follow
Reliable Fastq compression programs
fastq compression reliability
updated 10 months ago by ▴ 270 • written 7.9 years ago by 11k
7
votes
25
replies
9.9k
views
6 follow
Tool: MIGEC: towards error-free profiling of immune repertoires
sequencing-error tcr antibody molecular-barcode
updated 3 months ago by 40k • written 9.4 years ago by 3.5k
95
votes
25
replies
32k
views
11 follow
Tutorial: Fastq Quality Control Shootout
quality qc trimming fastq
updated 7 months ago by 40k • written 11.0 years ago by 98k
69
votes
25
replies
6.6k
views
16 follow
How Do You Explain What You Do To The Guy On The Street Or Your Mum?
general
updated 7 months ago by 40k • written 13.5 years ago by ▴ 190
23
votes
25
replies
2.5k
views
bash and awk code
bash awk terminal
9 months ago by Sam ▴ 150
15
votes
25
replies
2.1k
views
6 follow
Forum: How to get help on a question that has been buried?
meta biostars
updated 7 months ago by 40k • written 7.5 years ago by ▴ 720
6
votes
25
replies
33k
views
14 follow
CluserProfiler message "No gene can be mapped"
R
updated 4 months ago by • 0 • written 5.5 years ago by ▴ 130
12
votes
25
replies
1.9k
views
Transform Data into DNA picture
DNA
updated 9 months ago by 47k • written 9 months ago by ▴ 120
38
votes
25
replies
8.1k
views
13 follow
FASTA file of fixed length
sequence fasta
updated 18 days ago by 40k • written 7.5 years ago by ▴ 250
13
votes
25
replies
11k
views
9 follow
Tool: Mitcr: A Software Tool For Analyzing T-Cell Receptor Sequencing Data
analysis sequencing ngs
updated 3 months ago by 40k • written 10.2 years ago by 3.5k
8
votes
25
replies
2.5k
views
construction of a database
sql noSQL neo4j database
updated 6 months ago by 40k • written 2.4 years ago by ▴ 20
10
votes
25
replies
5.7k
views
7 follow
Convert Granges list of peaks into consensus counts
GRanges R Bioconductor
updated 9 months ago by • 0 • written 4.2 years ago by ▴ 160
11
votes
25
replies
5.4k
views
15 follow
News: Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 6 months ago by 40k • written 8.0 years ago by ▴ 330
17
votes
25
replies
2.0k
views
Tool: Platform for Bioinformatics Students, Scholars and Scientists
sequence genome
updated 3 months ago by 40k • written 7.6 years ago by ▴ 50
115
votes
25
replies
67k
views
14 follow
Is My Bam File Sorted ?
bam next-gen sequencing sort
updated 7 months ago by ▴ 10 • written 12.7 years ago by 157k
65
votes
25
replies
14k
views
12 follow
Tool: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq SRA
updated 11 weeks ago by • 0 • written 4.6 years ago by ★ 1.3k
56
votes
25
replies
3.7k
views
8 follow
Forum: Am I crazy, or are most published RNA-seq studies vastly underpowered?
sample-size statistical-power RNA-Seq
updated 3 months ago by 40k • written 3.1 years ago by ▴ 210
16
votes
25
replies
10k
views
13 follow
Easy way to split VCF file by chromosome
sequence TOPMED chromosome Imputation SNP
updated 12 weeks ago by 157k • written 20 months ago by ▴ 20
58
votes
25
replies
38k
views
15 follow
Tutorial: Protocol To Downlad TCGA Data From GDC
GDC methylation TCGA
updated 6 months ago by 40k • written 7.2 years ago by ★ 9.3k
39
votes
25
replies
3.9k
views
9 follow
Forum: Making a mac book Bioinfo ready (El Capitan)
mac software-installation
updated 5 months ago by 40k • written 7.6 years ago by 11k
13
votes
25
replies
3.5k
views
7 follow
VEP output has no gene names
alignment sequencing vep
updated 4 months ago by ★ 1.8k • written 5.2 years ago by ▴ 230
64
votes
24
replies
2.5k
views
12 follow
Forum: How much I must feel useless?
machine-learning Programming statistics
updated 4 months ago by 40k • written 5.0 years ago by ▴ 80
156
votes
24
replies
60k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
alternative-splicing splicing rna-seq
updated 3 months ago by 40k • written 10.6 years ago by 10k
76
votes
24
replies
57k
views
16 follow
How To Sort Bed Format File
bed
updated 11 months ago by 157k • written 10.6 years ago by ▴ 450
1,000 results • Page 4 of 20
Recent Votes
A: .gstmp extension on .bam files downloaded from google bucket; and EOF marker is
Comment: Significance testing of top vs. random SNPs
Answer: Search RCSB with a list of protein names?
A: running RAxML and MrBayes over concatinated multiple sequence alignments
Comment: Weirdness in annotation (missing allele frequencies)
Comment: Weirdness in annotation (missing allele frequencies)
Comment: ncbi error report log for validate fastq issue
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Recent Replies
Comment: Getting the overlap between two GTF files by Alex Reynolds 35k
What would that be?
Answer: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
@ialbert ,I am deeply immersed in the fog and request the help ,please
Comment: bedtools intersect by position & stand not working even with common regions by rfran010 ▴ 830
are you sure bedtools can handle the non-standard location of strand information?
Answer: Getting the overlap between two GTF files by rfran010 ▴ 830
Maybe somebody knows something I don't, but I feel like bedtools should be able to handle your gtf files directly. If it's not done alre…
Answer: vcf.gz to vcf by Mark ★ 1.3k
As the error says, the file is not compressed. In linux the file extension is essentially optional. The file could be named `my.vcf.txt` ye…
Answer: Search RCSB with a list of protein names? by Jiyao Wang ▴ 340
You can use NCBI esearch to search the protein names against the structure database to get the PDB IDs, then retrieve the structures.
Answer: How to get ncol = nrow? by Mark ★ 1.3k
Without your actual data, it's hard to assist. I think what you're asking is 'how do I rename the rows of my dataframe(s)'. Taking the …
Comment: MAKER: WARNING: Could not get initialization lock. Trying Again... by GenoMax 134k
What kind of hardware are you running this on? You need to have the right kind of hardware (multiple CPU's not just cores), MPI libraries a…
Answer: Getting the overlap between two GTF files by Alex Reynolds 35k
Using `bedops --intersect` and `gtf2bed` will get their common genomic space: ``` bedops --intersect <(gtf2bed < transcripts.gtf) <(gtf2be…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
```bash # Obtain the makefile curl -s http://data.biostarhandbook.com/make/snpcall.mk > Makefile # Run the makefile make vcf ``` Error me…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
> System Information: Ubuntu 22.04 (WSL2) > > Shell: zsh > > Installation Verification: Yes, doctor.py OK [1]: https://www.biostarhand…
Comment: Retrieve The Reads And Fastq From Bam File by Reem • 0
Did it affect the bamtofastq output file? if so how did you solve the problem? Thanks
Answer: How to import bigwig files into igvR by Trivas ★ 1.5k
You could try seeing if this fixes your issue with rtracklayer: https://support.bioconductor.org/p/p133244/
Comment: Weirdness in annotation (missing allele frequencies) by Jeremy Leipzig 21k
0.60625 is 97/160 so if you have 80 individuals in your VCF that's an internal allele frequency, not gnomAD
Comment: Weirdness in annotation (missing allele frequencies) by Can Abdullah • 0
Yes, I was confused as well. I think the same. Maybe Annovar uses some other resources besides gnomad, but it does not make sense. Also, I …
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