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Showing :
questions
17
votes
17
replies
21k
views
13 follow
How To Efficiently Sort A Fastq File By Entry Id?
fastq
illumina
sort
next-gen-sequencing
alignment
updated 3 months ago by
Ram
43k • written 12.4 years ago by
User 9996
▴ 840
50
votes
17
replies
38k
views
17 follow
How To Get Number Of Reads In Bam File Efficiently In Python?
python
samtools
next-gen
sequencing
updated 18 months ago by
Ram
43k • written 13.7 years ago by
User 9996
▴ 840
0
votes
1
reply
3.7k
views
Repeatmasker Crashes Before End Of Run With "Can'T Fork..."
repeats
repeatmasker
blast
makeblastdb
alignment
updated 5.0 years ago by
Biostar
20 • written 12.4 years ago by
User 9996
▴ 840
9
votes
1
reply
3.4k
views
Pysam Parses Certain Read Pairs Out Of Order?
sam
samtools
next-gen
sequencing
python
updated 5.6 years ago by
Ram
43k • written 13.8 years ago by
User 9996
▴ 840
20
votes
5
replies
10k
views
Going From Cigar String In Sam To Genomic Coordinates?
sam
parsing
cigar
alignment
updated 5.6 years ago by
Ram
43k • written 13.8 years ago by
User 9996
▴ 840
13
votes
5
replies
8.5k
views
Getting Genomic Sequences And Phastcons Scores Using Python From Ensembl/Ucsc?
python
biopython
ucsc
ensembl
sequence
updated 5.6 years ago by
Ram
43k • written 13.8 years ago by
User 9996
▴ 840
19
votes
18
replies
25k
views
7 follow
Efficiently Iterating Over Fastq Records From Python
python
fasta
fastq
biopython
next-gen
sequencing
updated 5.8 years ago by
hurfdurf
▴ 490 • written 12.4 years ago by
User 9996
▴ 840
6
votes
2
replies
2.3k
views
Coordinates Of Ucsc Table Tracks?
ucsc
genome
sequence
genome
updated 6.0 years ago by
Biostar
20 • written 13.1 years ago by
User 9996
▴ 840
9
votes
8
replies
7.8k
views
Filtering Stream Bam Output Idealy From Pysam/Python
samtools
bam
python
updated 22 months ago by
Ram
43k • written 12.4 years ago by
User 9996
▴ 840
9
votes
6
replies
4.3k
views
Retrieving Gene Expression Profiles For A Set Of Genes From All Tissues?
microarray
geo
next-gen
sequencing
gene
updated 9.3 years ago by
nvijay.1991
• 0 • written 13.2 years ago by
User 9996
▴ 840
4
votes
9
replies
4.8k
views
Best Way To Visualize Linkage And Genetic Map Between Pairs Of Genes?
mapping
genome
linkage
genetics
updated 12.3 years ago by
Mary
11k • written 12.3 years ago by
User 9996
▴ 840
21
votes
2
replies
17k
views
Truncating Bam Files With Samtools
samtools
sam
next-gen
sequencing
sequence
updated 12.4 years ago by
Gww
★ 2.7k • written 12.4 years ago by
User 9996
▴ 840
6
votes
3
replies
2.4k
views
Scoring Repetitive Sequences
genome
sequence
sequence
repeats
repeatmasker
updated 12.4 years ago by
Sean Davis
26k • written 12.4 years ago by
User 9996
▴ 840
32
votes
51
replies
20k
views
8 follow
Getting Unmapped Reads: Comparing Fastq To Bam
fastq
samtools
bedtools
bam
updated 12.4 years ago by
brentp
24k • written 12.4 years ago by
User 9996
▴ 840
20
votes
6
replies
7.0k
views
Finding Reference Sequences And Interpretation Of Data From Repeatmasker Ucsc Tables
repeatmasker
ucsc
ucsc
browser
repeats
updated 23 months ago by
Ram
43k • written 12.4 years ago by
User 9996
▴ 840
7
votes
7
replies
7.7k
views
Reporting The Bam Reads Overlapping A Set Of Intervals With Bedtools
bedtools
bam
next-gen
sequencing
bed
updated 12.5 years ago by
Alex Reynolds
35k • written 12.5 years ago by
User 9996
▴ 840
5
votes
4
replies
5.1k
views
Counting Number Of Bam Reads Directly Within Set Of Intervals With Bedtools
bedtools
bed
bam
gff
rna
updated 12.6 years ago by
Pierre Lindenbaum
161k • written 12.6 years ago by
User 9996
▴ 840
14
votes
3
replies
11k
views
Fasta Alignment Format - Sequences Must Be Same Length?
fasta
alignment
protein
programming
updated 12.8 years ago by
Daniel Standage
4.1k • written 13.2 years ago by
User 9996
▴ 840
5
votes
4
replies
7.8k
views
Cell Segmentation And Quantification Of Immunofluorescence In Python
python
gene
updated 13.1 years ago by
Michael
54k • written 13.1 years ago by
User 9996
▴ 840
6
votes
5
replies
9.9k
views
Fetching Read By Its Id From A Bam File With Pysam In Python
samtools
python
next-gen
sequencing
updated 13.1 years ago by
brentp
24k • written 13.1 years ago by
User 9996
▴ 840
24
votes
11
replies
6.9k
views
6 follow
Intersecting A Set Of Bam Reads With A Set Of Coordinates
python
sam
bam
next-gen
sequencing
updated 13.2 years ago by
Brad Chapman
9.7k • written 13.2 years ago by
User 9996
▴ 840
9
votes
3
replies
3.9k
views
Uniprot In Gff3 Format
uniprot
gff
gene
updated 13.2 years ago by
Jarretinha
3.4k • written 13.2 years ago by
User 9996
▴ 840
11
votes
3
replies
3.0k
views
Using Multiple Parent Values In Gff3 Format?
gff
gff
format
updated 13.3 years ago by
biobot 0.0.77.a.1099
6.2k • written 13.7 years ago by
User 9996
▴ 840
3
votes
3
replies
3.0k
views
Question About Ensembl Biomart Tables
ensembl
genome
biomart
updated 13.3 years ago by
Joachim
★ 2.9k • written 13.3 years ago by
User 9996
▴ 840
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