phasegenomics/FALCON-Phase

Issues

• How to split HiC reads into haplotypes?

  #87 opened 2 months ago by DayTimeMouse
  0

• restriction enzyme

  #86 opened 2 years ago by zhangjuncsu
  0

• A significant drop in BUSCO scores after FALCON-Phase

  #85 opened 3 years ago by melop
  1

• bam_filt.o:(.bss+0x50): multiple definition of `rp'

  #84 opened 3 years ago by bingochenbin
  0

• Workflow

  #83 opened 3 years ago by Yutang-ETH
  0

• HSTLIB or HTSLIB

  #82 opened 3 years ago by Yutang-ETH
  0

• Problem with phasing

  #80 opened 4 years ago by cgy0627
  3

• number of contigs increased after falcon-phase

  #81 opened 4 years ago by olechnwin
  0

• Mapping multiple Hi-C data

  #79 opened 4 years ago by cgy0627
  1

• BioPython required for preprocess script

  #77 opened 4 years ago by alanorth
  2

• Please tag a new release

  #76 opened 4 years ago by alanorth
  2

• Real deletions or missing homozygous regions?

  #70 opened 4 years ago by uceleste
  1

• Compatibility with IPA output

  #75 opened 4 years ago by Adamtaranto
  1

• Fix falcon-phase printing order bug

  #56 opened 4 years ago by zeeev
  3

• chunk HiC mapping step

  #57 opened 4 years ago by iggyB
  3

• Falcon-Phase second round

  #58 opened 4 years ago by iggyB
  11

• Can we concat haplotypes.fasta and haplotigs.fasta sequences ?

  #61 opened 4 years ago by jnarayan81
  1

• run with nanopore data

  #62 opened 4 years ago by yilunhuangyue
  2

• replicates and cocktail restriction enzyme

  #65 opened 4 years ago by olechnwin
  5

• Software producing identical haplotypes

  #68 opened 4 years ago by bd904
  1

• Segault on Ubuntu in phase_likelihood (with 7c50154)

  #71 opened 5 years ago by pontus
  2

• use of purge haplotigs with falcon-phase

  #73 opened 4 years ago by Juke34
  1

• phased with falcon-unzip and falcon-phase

  #74 opened 4 years ago by leeun357
  1

• haplotig header suffix. Does the order matter?

  #72 opened 5 years ago by Juke34
  1

• Error in rule nucmer

  #66 opened 5 years ago by bd904
  7

• parental k-mer counting

  #67 opened 5 years ago by erikenbody
  2

• zlib.h: no such file

  #64 opened 6 years ago by olechnwin
  8

• {sample}.phased.txt empty

  #63 opened 6 years ago by aboyher
  6

• Compatibility with FALCON headers

  #59 opened 6 years ago by pb-cdunn
  8

• falcon-phase bamfilt segmentation fault on some OSs

  #55 opened 6 years ago by peterdfields
  6

• falcon-phase bamfilt: 43456 segmentation fault (core dumped)

  #34 opened 6 years ago by jnarayan81
  10

• empty XX.phased.1.fasta

  #52 opened 6 years ago by BenjaminSchwessinger
  13

• makefile bug -lcurl

  #42 opened 6 years ago by hewm2008
  1

• FALCON-Phase does not emit primary contigs without a haplotig

  #31 opened 6 years ago by abardill
  3

• how to edit the config.sh

  #47 opened 6 years ago by xiaoaozqd
  1

• cat command returns "Argument list too long"

  #25 opened 6 years ago by phillip-mcclurg-driscolls
  4

• order index file

  #24 opened 6 years ago by skingan
  1

• prevent users from using too few iter in phasing on real data

  #26 opened 6 years ago by skingan
  1

• Test coverage (dataset)

  #23 opened 6 years ago by zeeev
  2

• Hi-C Simulator

  #36 opened 6 years ago by pb-cdunn
  7

• Multiple restriction motifs?

  #38 opened 6 years ago by Adamtaranto
  1

• Syntax style error in make file

  #35 opened 6 years ago by zeeev
  7

• remove tmp files

  #17 opened 6 years ago by skingan
  1

• scrub_names.pl throws errors and creates empty output

  #30 opened 6 years ago by ghannum
  5

• Error in rule placement

  #29 opened 6 years ago by zhidaobuzhidao
  2

• Understanding the output of FALCON-Phase

  #22 opened 6 years ago by bgbrink
  7

• wrong bedtools version in default config

  #27 opened 6 years ago by skingan
  0

• question for single copy regions in homologes chromosomes

  #16 opened 6 years ago by BenjaminSchwessinger
  1

• use FALCON-Phase with non-FALCON unzip assembly?

  #20 opened 6 years ago by ersgupta
  1

• Missing input files for rule bam_filt

  #21 opened 6 years ago by bgbrink
  0