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AntonelliLab
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seqcap_processor
Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics
MIT License
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IndexError in "reference_assembly" (secapr v 2.2.8)
#40
kroeve
closed
6 months ago
1
locus_selection
#39
pabijanM
opened
8 months ago
2
--min-coverage in find_target_contigs
#38
pabijanM
opened
1 year ago
1
avoid crash when no contigs found by find_target_contigs.py
#37
bmichanderson
closed
1 year ago
1
Example file format for secapr clean_reads
#36
nbat64
closed
1 year ago
5
Problem with loci alignments
#35
PierreHenriFabre
opened
1 year ago
5
Correct previous correction for int as fasta ref id
#34
bmichanderson
closed
2 years ago
0
Correct previous patch for numpy.int64 values as fasta sequence names
#33
bmichanderson
closed
2 years ago
1
Fix paralogs_to_ref.py
#32
bmichanderson
closed
2 years ago
1
Change parallel processing for assemble_reads.py
#31
bmichanderson
closed
2 years ago
1
Adjust parallel processing for assemble_reads.py
#30
bmichanderson
closed
2 years ago
2
Fix paralogs_to_ref.py
#29
bmichanderson
closed
2 years ago
1
IndexError in "reference_assembly"
#28
kq1986
closed
2 years ago
1
FileExistsError: [Errno 17] File exists: '/home/gmeng/work/4.assembly/secapr/April-5-2022/stats'
#27
linzhi2013
opened
2 years ago
0
ValueError: No objects to concatenate
#26
linzhi2013
opened
2 years ago
0
Paralogs_to_ref
#25
EdBiff
opened
2 years ago
0
GC overhead limit exceeded
#24
MikeSanJose
opened
2 years ago
2
Division by zero error on aDNA dataset
#23
ThibauldMichel
opened
3 years ago
0
KeyError in locus_selection.py
#22
ThibauldMichel
opened
3 years ago
0
"Average_cov_per_locus" file missing, causing error in plotting matrices of selected loci?
#21
wtesto
closed
3 years ago
1
--disable_stats missing?
#20
BenKuhnhaeuser
opened
4 years ago
4
Python 2.7 is end-of-life
#19
marcelm
closed
4 years ago
1
problem with find_target_contigs with subset of loci getting dropped wrongly
#18
kvpmulder
closed
4 years ago
0
Good loci lost during phasing
#17
brunoasm
opened
5 years ago
0
Error with add_missing_sequences
#16
brunoasm
opened
5 years ago
0
paralogs_to_ref IndexError
#15
emmawahl
closed
4 years ago
1
phase_alleles requires --reference flag parameter
#14
btsinn
closed
5 years ago
4
Assembly_reads fails with IOError
#13
ClaudiaPaetzold
closed
5 years ago
9
Bug in alignment of phased sequences
#12
brunoasm
closed
5 years ago
3
Speeding up find_target_contigs using parallelLastz
#11
RandolphQuek
opened
6 years ago
0
Arguments in assemble_reads.py
#10
SergioB1983
closed
5 years ago
2
Reconstructing phased sequences for homozygous individuals
#9
Anh-Thu-Weber
closed
4 years ago
1
Removing CLC from mapper possibility
#8
Estel-Kitsune
closed
7 years ago
0
Fixing a few typos
#7
Estel-Kitsune
closed
7 years ago
0
Recipe fixes
#6
marcelm
closed
7 years ago
1
Conda
#5
Estel-Kitsune
closed
7 years ago
1
added index file for phased bam files
#4
tandermann
closed
8 years ago
0
added bwa mapper to phasing script
#3
tandermann
closed
8 years ago
0
Shebang now working on Albiorix 4.0
#2
mtop
closed
5 years ago
0
Argument "read_min" in clean_reads.py
#1
Estel-Kitsune
closed
8 years ago
1