Ecosyste.ms: Issues

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GitHub / yechengxi/dbg2olc issues and pull requests

#79 - can dbg2olc restarts at where it fails

Issue - State: open - Opened by yuhuang-genomics over 3 years ago

#78 - Is it ContigTh or ContigCovTh?

Issue - State: closed - Opened by shelkmike over 3 years ago - 1 comment

#77 - FreeSparseKmerGraph 出现coredump

Issue - State: open - Opened by shuleyu over 3 years ago

#76 - Error! Maximal alignment length reached. max_len: 250

Issue - State: closed - Opened by ZhangZhenmiao over 3 years ago - 2 comments

#75 - Sparc always uses 64 CPU threads

Issue - State: open - Opened by shelkmike over 3 years ago

#74 - 0 reads loaded -> floating point exception

Issue - State: open - Opened by Jorisvansteenbrugge over 3 years ago - 3 comments

#73 - How to use paired-end reads (R1 and R2) in SparseAssembler

Issue - State: closed - Opened by khaled8523 almost 4 years ago - 3 comments

#72 - Smaller consensus.

Issue - State: closed - Opened by Yuma248 about 4 years ago - 1 comment

#71 - segfault

Issue - State: closed - Opened by Aphrix over 4 years ago - 1 comment

#70 - Update split_and_run_sparc.path.sh

Pull Request - State: closed - Opened by pdimens over 4 years ago

#69 - Overlap and Layout Step

Issue - State: closed - Opened by shanewidanagama over 4 years ago - 1 comment

#68 - Create LICENSE

Pull Request - State: closed - Opened by yechengxi over 4 years ago

#67 - merging of final backbone contigs to illumina assembly

Issue - State: closed - Opened by pradeepphule almost 5 years ago - 1 comment

#66 - Floating point exception (core dumped)

Issue - State: closed - Opened by baizixiansheng almost 5 years ago - 1 comment

#65 - Just give you some suggestions!

Issue - State: closed - Opened by yueyuanliu about 5 years ago - 1 comment

#64 - No release management?

Issue - State: closed - Opened by cmeesters about 5 years ago - 2 comments

#63 - Empty sequence loaded. It looks like you have messed up the data.

Issue - State: closed - Opened by pgaiero about 5 years ago - 1 comment

#62 - Update split_and_run_sparc.path.sh

Pull Request - State: closed - Opened by pdimens over 5 years ago

#61 - Update split_and_run_sparc.path.sh

Pull Request - State: closed - Opened by pdimens over 5 years ago

#60 - Linked reads + PacBio reads

Issue - State: closed - Opened by francicco over 5 years ago - 1 comment

#59 - Update split_and_run_pbdagcon.sh

Pull Request - State: closed - Opened by pdimens over 5 years ago

#58 - Update split_and_run_pbdagcon.path.sh

Pull Request - State: closed - Opened by pdimens over 5 years ago

#57 - segmentation fault

Issue - State: closed - Opened by jaworskicoline over 5 years ago - 5 comments

#56 - settings for 10x and 7x coverage

Issue - State: closed - Opened by mictadlo over 5 years ago

#55 - Empty sequence loaded. It looks like you have messed up the data.

Issue - State: closed - Opened by helaersr over 5 years ago - 3 comments

#55 - Empty sequence loaded. It looks like you have messed up the data.

Issue - State: closed - Opened by helaersr over 5 years ago - 3 comments

#54 - Small contigs and slurm_script: Floating point exception

Issue - State: closed - Opened by LironShv over 5 years ago - 1 comment

#53 - Segmentation fault with large genome

Issue - State: closed - Opened by dgavr almost 6 years ago - 2 comments

#52 - Step1 with illumina reads of different insert size ?

Issue - State: closed - Opened by ptranvan almost 6 years ago - 1 comment

#51 - improvements and minor bugfixes

Pull Request - State: closed - Opened by schellt almost 6 years ago

#50 - sparse assembly on longest illumina paired reads

Issue - State: closed - Opened by olechnwin about 6 years ago - 8 comments

#49 - Segmentation fault (core dumped) when analyzing reads

Issue - State: closed - Opened by jmodlis over 6 years ago - 4 comments

#47 - Core dumped

Issue - State: closed - Opened by pdimens over 6 years ago - 7 comments

#46 - Racon vs sparc

Issue - State: closed - Opened by mictadlo over 6 years ago

#45 - Consensus not working

Issue - State: closed - Opened by Saillantslab over 6 years ago - 5 comments

#44 - error correction of pacbio reads

Issue - State: closed - Opened by nm100 over 6 years ago - 1 comment

#43 - 478 Floating point exception

Issue - State: closed - Opened by jazberna1 over 6 years ago - 1 comment

#42 - Open and close each file i.s.o. leaving them all open

Pull Request - State: closed - Opened by swarris almost 7 years ago - 1 comment

#41 - no more ulimit necessary

Issue - State: closed - Opened by swarris almost 7 years ago - 2 comments

#40 - How DBG2OLC deals heterozygosity?

Issue - State: closed - Opened by uceleste almost 7 years ago - 2 comments

#39 - Forgotten semi-colon in Create_Local_Contig_Kmer_Index(GraphConstructi…

Pull Request - State: closed - Opened by bredeson almost 7 years ago

#38 - Fix for issue #31

Pull Request - State: closed - Opened by bredeson almost 7 years ago - 1 comment

#37 - larger genome size

Issue - State: closed - Opened by hermeseduardo almost 7 years ago - 9 comments

#35 - Zero Unique Matching Kmers

Issue - State: closed - Opened by GWheelerEB almost 7 years ago - 1 comment

#34 - Choose the best assembly

Issue - State: closed - Opened by uceleste about 7 years ago - 2 comments

#33 - DBG2OLC parameters for huge dataset of PacBio

Issue - State: closed - Opened by uceleste about 7 years ago - 2 comments

#32 - combining ReadsInfoFrom_* fails

Issue - State: closed - Opened by janvanoeveren about 7 years ago - 5 comments

#31 - Create_Local_Contig_Kmer_Index(GraphConstruction.h) SegFault

Issue - State: closed - Opened by bredeson about 7 years ago - 7 comments

#30 - output error information

Issue - State: closed - Opened by nachuwei over 7 years ago - 1 comment

#29 - Short read contig selection for calculation of compressed reads

Issue - State: closed - Opened by slimsuite over 7 years ago - 1 comment

#28 - step0 option total length

Issue - State: closed - Opened by nachuwei over 7 years ago - 2 comments

#27 - Segmentation fault

Issue - State: closed - Opened by ipavanellisouza over 7 years ago - 2 comments

#26 - truncated backbone_raw.fasta

Issue - State: closed - Opened by matt-shenton over 7 years ago - 2 comments

#25 - k-mer size

Issue - State: closed - Opened by janvanoeveren over 7 years ago - 2 comments

#24 - Consensus step - empty output

Issue - State: closed - Opened by s-yazar over 7 years ago - 4 comments

#23 - multithreading

Issue - State: closed - Opened by janvanoeveren over 7 years ago - 9 comments

#22 - Split reads by backbone minimize open files

Pull Request - State: closed - Opened by yechengxi over 7 years ago

#21 - KeyError from split_reads_by_backbone.py

Issue - State: closed - Opened by dalbada over 7 years ago - 3 comments

#20 - A problem with the number of files (Python)

Issue - State: closed - Opened by andreyurch over 7 years ago - 5 comments

#19 - Floating point exception

Issue - State: closed - Opened by npavlovikj over 7 years ago - 3 comments

#18 - Problem in step3-Call consensus

Issue - State: closed - Opened by Timothy-WANG almost 8 years ago - 4 comments

#17 - raw pacbio

Issue - State: closed - Opened by tangerzhang almost 8 years ago - 4 comments

#16 - Problem with step III

Issue - State: closed - Opened by ulaszewski almost 8 years ago - 3 comments

#15 - split_and_run_sparc has typos

Issue - State: closed - Opened by biorover almost 8 years ago - 2 comments

#14 - Why is the genome small by assembled use DBG2OLC?

Issue - State: closed - Opened by DongnaMa almost 8 years ago - 1 comment

#13 - Add code blocks around example commands in README

Pull Request - State: closed - Opened by hpincket almost 8 years ago

#12 - DBG2OLC proovreads

Issue - State: closed - Opened by hermeseduardo about 8 years ago - 2 comments

#11 - 关于Contigs问题

Issue - State: closed - Opened by Rokami about 8 years ago

#10 - DBG2OLC': free(): invalid pointer

Issue - State: closed - Opened by CeciliaDeng about 8 years ago - 3 comments

#9 - SelectLongestReads: 'std::length_error'

Issue - State: closed - Opened by CeciliaDeng about 8 years ago - 1 comment

#8 - KeyError: 'Backbone_9625'

Issue - State: closed - Opened by hermeseduardo about 8 years ago - 1 comment

#7 - Extension warning

Issue - State: closed - Opened by HenrivdGeest about 8 years ago - 1 comment

#6 - setting ulimit -n unlimited is impossible on Linux OS

Issue - State: closed - Opened by billzt about 8 years ago - 2 comments

#5 - error

Issue - State: closed - Opened by quattrinia over 8 years ago - 1 comment

#4 - shrinking contigs during Sparc consensus step

Issue - State: closed - Opened by JohnUrban over 8 years ago - 1 comment

#3 - sample data download

Issue - State: closed - Opened by albodrug over 8 years ago - 1 comment

#2 - full_layout.fasta and graph outputs

Issue - State: closed - Opened by colindaven over 8 years ago - 6 comments

#1 - Update README.md

Pull Request - State: closed - Opened by yechengxi almost 9 years ago - 1 comment